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Center for Computational Systems Medicine
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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:CTNNA1-SIL1 (FusionGDB2 ID:20271)

Fusion Gene Summary for CTNNA1-SIL1

check button Fusion gene summary
Fusion gene informationFusion gene name: CTNNA1-SIL1
Fusion gene ID: 20271
HgeneTgene
Gene symbol

CTNNA1

SIL1

Gene ID

1495

64374

Gene namecatenin alpha 1SIL1 nucleotide exchange factor
SynonymsCAP102|MDPT2BAP|MSS|ULG5
Cytomap

5q31.2

5q31.2

Type of geneprotein-codingprotein-coding
Descriptioncatenin alpha-1alpha-E-catenincatenin (cadherin-associated protein), alpha 1, 102kDaepididymis secretory sperm binding proteinrenal carcinoma antigen NY-REN-13nucleotide exchange factor SIL1BiP-associated proteinSIL1 homolog, endoplasmic reticulum chaperoneSIL1-like protein endoplasmic reticulum chaperone
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000355078, ENST00000302763, 
ENST00000518825, ENST00000520400, 
ENST00000540387, 		ENST00000394817, 
ENST00000265195, ENST00000509534, 
ENST00000515008, 
Fusion gene scores* DoF score25 X 19 X 12=570015 X 12 X 6=1080
# samples 3418
** MAII scorelog2(34/5700*10)=-4.06735526780176
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(18/1080*10)=-2.58496250072116
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CTNNA1 [Title/Abstract] AND SIL1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCTNNA1(138223253)-SIL1(138356859), # samples:1
CTNNA1(138119060)-SIL1(138384714), # samples:1
CTNNA1(138119060)-SIL1(138386690), # samples:1
SIL1(138283094)-CTNNA1(138253431), # samples:1
SIL1(138532130)-CTNNA1(138264935), # samples:1
Anticipated loss of major functional domain due to fusion event.
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneCTNNA1

GO:0071681

cellular response to indole-3-methanol

10868478


check buttonFusion gene breakpoints across CTNNA1 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonFusion gene breakpoints across SIL1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* All genome coordinats were lifted-over on hg19.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4BLCATCGA-GV-A3QI-01ACTNNA1chr5

138223253

+SIL1chr5

138356859

+
ChimerDB4BRCATCGA-EW-A1P8-01ACTNNA1chr5

138119060

+SIL1chr5

138384714

+
ChimerDB4BRCATCGA-EW-A1P8-01ACTNNA1chr5

138119060

+SIL1chr5

138386690

+


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Fusion Gene ORF analysis for CTNNA1-SIL1

check button Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
5CDS-intronENST00000355078ENST00000394817CTNNA1chr5

138223253

+SIL1chr5

138356859

+
5CDS-intronENST00000355078ENST00000265195CTNNA1chr5

138223253

+SIL1chr5

138356859

+
5CDS-intronENST00000355078ENST00000509534CTNNA1chr5

138223253

+SIL1chr5

138356859

+
5CDS-intronENST00000355078ENST00000515008CTNNA1chr5

138223253

+SIL1chr5

138356859

+
5CDS-intronENST00000302763ENST00000394817CTNNA1chr5

138223253

+SIL1chr5

138356859

+
5CDS-intronENST00000302763ENST00000265195CTNNA1chr5

138223253

+SIL1chr5

138356859

+
5CDS-intronENST00000302763ENST00000509534CTNNA1chr5

138223253

+SIL1chr5

138356859

+
5CDS-intronENST00000302763ENST00000515008CTNNA1chr5

138223253

+SIL1chr5

138356859

+
5CDS-intronENST00000518825ENST00000394817CTNNA1chr5

138223253

+SIL1chr5

138356859

+
5CDS-intronENST00000518825ENST00000265195CTNNA1chr5

138223253

+SIL1chr5

138356859

+
5CDS-intronENST00000518825ENST00000509534CTNNA1chr5

138223253

+SIL1chr5

138356859

+
5CDS-intronENST00000518825ENST00000515008CTNNA1chr5

138223253

+SIL1chr5

138356859

+
3UTR-intronENST00000520400ENST00000394817CTNNA1chr5

138223253

+SIL1chr5

138356859

+
3UTR-intronENST00000520400ENST00000265195CTNNA1chr5

138223253

+SIL1chr5

138356859

+
3UTR-intronENST00000520400ENST00000509534CTNNA1chr5

138223253

+SIL1chr5

138356859

+
3UTR-intronENST00000520400ENST00000515008CTNNA1chr5

138223253

+SIL1chr5

138356859

+
5CDS-intronENST00000540387ENST00000394817CTNNA1chr5

138223253

+SIL1chr5

138356859

+
5CDS-intronENST00000540387ENST00000265195CTNNA1chr5

138223253

+SIL1chr5

138356859

+
5CDS-intronENST00000540387ENST00000509534CTNNA1chr5

138223253

+SIL1chr5

138356859

+
5CDS-intronENST00000540387ENST00000515008CTNNA1chr5

138223253

+SIL1chr5

138356859

+
intron-intronENST00000355078ENST00000394817CTNNA1chr5

138119060

+SIL1chr5

138384714

+
intron-intronENST00000355078ENST00000265195CTNNA1chr5

138119060

+SIL1chr5

138384714

+
intron-intronENST00000355078ENST00000509534CTNNA1chr5

138119060

+SIL1chr5

138384714

+
intron-intronENST00000355078ENST00000515008CTNNA1chr5

138119060

+SIL1chr5

138384714

+
5CDS-intronENST00000302763ENST00000394817CTNNA1chr5

138119060

+SIL1chr5

138384714

+
5CDS-intronENST00000302763ENST00000265195CTNNA1chr5

138119060

+SIL1chr5

138384714

+
5CDS-intronENST00000302763ENST00000509534CTNNA1chr5

138119060

+SIL1chr5

138384714

+
5CDS-intronENST00000302763ENST00000515008CTNNA1chr5

138119060

+SIL1chr5

138384714

+
5CDS-intronENST00000518825ENST00000394817CTNNA1chr5

138119060

+SIL1chr5

138384714

+
5CDS-intronENST00000518825ENST00000265195CTNNA1chr5

138119060

+SIL1chr5

138384714

+
5CDS-intronENST00000518825ENST00000509534CTNNA1chr5

138119060

+SIL1chr5

138384714

+
5CDS-intronENST00000518825ENST00000515008CTNNA1chr5

138119060

+SIL1chr5

138384714

+
intron-intronENST00000520400ENST00000394817CTNNA1chr5

138119060

+SIL1chr5

138384714

+
intron-intronENST00000520400ENST00000265195CTNNA1chr5

138119060

+SIL1chr5

138384714

+
intron-intronENST00000520400ENST00000509534CTNNA1chr5

138119060

+SIL1chr5

138384714

+
intron-intronENST00000520400ENST00000515008CTNNA1chr5

138119060

+SIL1chr5

138384714

+
intron-intronENST00000540387ENST00000394817CTNNA1chr5

138119060

+SIL1chr5

138384714

+
intron-intronENST00000540387ENST00000265195CTNNA1chr5

138119060

+SIL1chr5

138384714

+
intron-intronENST00000540387ENST00000509534CTNNA1chr5

138119060

+SIL1chr5

138384714

+
intron-intronENST00000540387ENST00000515008CTNNA1chr5

138119060

+SIL1chr5

138384714

+
intron-3CDSENST00000355078ENST00000394817CTNNA1chr5

138119060

+SIL1chr5

138386690

+
intron-3CDSENST00000355078ENST00000265195CTNNA1chr5

138119060

+SIL1chr5

138386690

+
intron-3CDSENST00000355078ENST00000509534CTNNA1chr5

138119060

+SIL1chr5

138386690

+
intron-intronENST00000355078ENST00000515008CTNNA1chr5

138119060

+SIL1chr5

138386690

+
In-frameENST00000302763ENST00000394817CTNNA1chr5

138119060

+SIL1chr5

138386690

+
In-frameENST00000302763ENST00000265195CTNNA1chr5

138119060

+SIL1chr5

138386690

+
In-frameENST00000302763ENST00000509534CTNNA1chr5

138119060

+SIL1chr5

138386690

+
5CDS-intronENST00000302763ENST00000515008CTNNA1chr5

138119060

+SIL1chr5

138386690

+
In-frameENST00000518825ENST00000394817CTNNA1chr5

138119060

+SIL1chr5

138386690

+
In-frameENST00000518825ENST00000265195CTNNA1chr5

138119060

+SIL1chr5

138386690

+
In-frameENST00000518825ENST00000509534CTNNA1chr5

138119060

+SIL1chr5

138386690

+
5CDS-intronENST00000518825ENST00000515008CTNNA1chr5

138119060

+SIL1chr5

138386690

+
intron-3CDSENST00000520400ENST00000394817CTNNA1chr5

138119060

+SIL1chr5

138386690

+
intron-3CDSENST00000520400ENST00000265195CTNNA1chr5

138119060

+SIL1chr5

138386690

+
intron-3CDSENST00000520400ENST00000509534CTNNA1chr5

138119060

+SIL1chr5

138386690

+
intron-intronENST00000520400ENST00000515008CTNNA1chr5

138119060

+SIL1chr5

138386690

+
intron-3CDSENST00000540387ENST00000394817CTNNA1chr5

138119060

+SIL1chr5

138386690

+
intron-3CDSENST00000540387ENST00000265195CTNNA1chr5

138119060

+SIL1chr5

138386690

+
intron-3CDSENST00000540387ENST00000509534CTNNA1chr5

138119060

+SIL1chr5

138386690

+
intron-intronENST00000540387ENST00000515008CTNNA1chr5

138119060

+SIL1chr5

138386690

+

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)
ENST00000302763CTNNA1chr5138119060+ENST00000394817SIL1chr5138386690+188539111481882245
ENST00000302763CTNNA1chr5138119060+ENST00000265195SIL1chr5138386690+18513917631848362
ENST00000302763CTNNA1chr5138119060+ENST00000509534SIL1chr5138386690+15823917731579269
ENST00000518825CTNNA1chr5138119060+ENST00000394817SIL1chr5138386690+179730310601794245
ENST00000518825CTNNA1chr5138119060+ENST00000265195SIL1chr5138386690+17633036751760362
ENST00000518825CTNNA1chr5138119060+ENST00000509534SIL1chr5138386690+14943036851491269

check buttonDeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score
ENST00000302763ENST00000394817CTNNA1chr5138119060+SIL1chr5138386690+0.285214630.71478534
ENST00000302763ENST00000265195CTNNA1chr5138119060+SIL1chr5138386690+0.0204311630.9795688
ENST00000302763ENST00000509534CTNNA1chr5138119060+SIL1chr5138386690+0.0143767750.98562324
ENST00000518825ENST00000394817CTNNA1chr5138119060+SIL1chr5138386690+0.42130330.5786967
ENST00000518825ENST00000265195CTNNA1chr5138119060+SIL1chr5138386690+0.0253181230.97468185
ENST00000518825ENST00000509534CTNNA1chr5138119060+SIL1chr5138386690+0.0300485550.9699515

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Fusion Genomic Features for CTNNA1-SIL1


check buttonFusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.

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Fusion Protein Features for CTNNA1-SIL1


check button Go to

FGviewer for the breakpoints of chr5:138119060-chr5:138386690

.
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
..
FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.

check buttonRetention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at

download page


* Minus value of BPloci means that the break pointn is located before the CDS.
- In-frame and retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneCTNNA1chr5:138119060chr5:138386690ENST00000302763+3182_228100.33333333333333907.0RegionNote=Involved in homodimerization
HgeneCTNNA1chr5:138119060chr5:138386690ENST00000540387+1122_2280537.0RegionNote=Involved in homodimerization


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Fusion Gene Sequence for CTNNA1-SIL1


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.
>In-frame_ENST00000302763_ENST00000394817_TCGA-EW-A1P8-01A_CTNNA1_chr5_138119060_+_SIL1_chr5_138386690_length(transcript)=1885nt_BP=391nt
TCCTCCTCCTAGCCGGACTGGAGGGAGACAAAGCAGCGCCCGTCTGCTTCGGGCCTCTGGAATTTAGCGCTCGCCCAGCTAGCCGCAGAA
ATGACTGCTGTCCATGCAGGCAACATAAACTTCAAGTGGGATCCTAAAAGTCTAGAGATCAGGACTCTGGCAGTTGAGAGACTGTTGGAG
CCTCTTGTTACACAGGTTACAACCCTTGTAAACACCAATAGTAAAGGGCCCTCTAATAAGAAGAGAGGTCGTTCTAAGAAGGCCCATGTT
TTGGCTGCATCTGTTGAACAAGCAACTGAGAATTTCTTGGAGAAGGGGGATAAAATTGCGAAGGAGAGCCAGTTTCTCAAGGAGGAGCTT
GTGGCTGCTGTAGAAGATGTTCGAAAACAAGATGTTCGCCGAGGAGGAGGCTGAGCTGACCCAGGAGATGTCCCCAGAGAAGCTGCAGCA
GTATCGCCAGGTACACCTCCTGCCAGGCCTGTGGGAACAGGGCTGGTGCGAGATCACGGCCCACCTCCTGGCGCTGCCCGAGCATGATGC
CCGTGAGAAGGTGCTGCAGACACTGGGCGTCCTCCTGACCACCTGCCGGGACCGCTACCGTCAGGACCCCCAGCTCGGCAGGACACTGGC
CAGCCTGCAGGCTGAGTACCAGGTGCTGGCCAGCCTGGAGCTGCAGGATGGTGAGGACGAGGGCTACTTCCAGGAGCTGCTGGGCTCTGT
CAACAGCTTGCTGAAGGAGCTGAGATGAGGCCCCACACCAGGACTGGACTGGGATGCCGCTAGTGAGGCTGAGGGGTGCCAGCGTGGGTG
GGCTTCTCAGGCAGGAGGACATCTTGGCAGTGCTGGCTTGGCCATTAAATGGAAACCTGAAGGCCATCCTCTTTCTGCTGTGTGTCTGTG
TAGACTGGGCACAGCCCTGTGGCCGGGGGGTCAGGTGAGTGGTTGGGTGATGGGCTCTGCTGACGTGCAGGGCTCAGCCCAGGGCATCCA
GGAACAGGCTCCAGGGCAGGAACCTGGGCCCAGGAGTTGCAAGTCTCTGCTTCTTACCAAGCAGCAGCTCTGTACCTTGGGAAGTCGCTT
AATTGCTCTGAGCTTGTTTCCTCATCTGTCAGGAGTGCCATTAAAGGAGAAAAATCACGTAGAAAGTCCTGTTTGCACTGTGCTCCCTGC
TGCGCCACTTCCCCTATGCCCAGCGGCAGTTCCTGAAGCTCGGGGGGCTGCAGGTCCTGAGGACCCTGGTGCAGGAGAAGGGCACGGAGG
TGCTCGCCGTGCGCGTGGTCACACTGCTCTACGACCTGGTCACGGAGAAGCAACCCCAAGGTCCAGGTGGAGGCCATCGAAGGGGGAGCC
CTGCAGAAGCTGCTGGTCATCCTGGCCACGGAGCAGCCGCTCACTGCAAAGAAGAAGATGGACAATGCGCAGGACCTGCTTTCCTTTGGT
GGTCTTCAAGTGGTGATCAATGGGCTGAACAGCACAGAGCCCCTCGTGAAGGAGTATGCTGCGTTTGTGCTGGGCGCTGCCTTTTCCAGG
CAAGGCAGGCTGAGGTAAAGCGGCTCTTCCGCCCCATTGAGGAACTGAAGAAAGACTTTGATGAGCTGAATGTTGTCATTGAGACTGACA
TGCAGATCATGGTACGGCTGATCAACAAGTTCAATAGTTCCAGCTCCAGTTTGGAAGAGAAGATTGCTGCGCTCTTTGATCTTGAATATT
ATGTCCATCAGGCTGGATATCAACACCAACACCTACACATCTCAGGATCTCAAGAGTGCACTGGCAAAATTCAAGGAGGGGGCAGAGATG

>In-frame_ENST00000302763_ENST00000394817_TCGA-EW-A1P8-01A_CTNNA1_chr5_138119060_+_SIL1_chr5_138386690_length(amino acids)=245AA_start in transcript=1148_stop in transcript=1882
MFALCSLLRHFPYAQRQFLKLGGLQVLRTLVQEKGTEVLAVRVVTLLYDLVTEKQPQGPGGGHRRGSPAEAAGHPGHGAAAHCKEEDGQC
AGPAFLWWSSSGDQWAEQHRAPREGVCCVCAGRCLFQARQAEVKRLFRPIEELKKDFDELNVVIETDMQIMVRLINKFNSSSSSLEEKIA

--------------------------------------------------------------
>In-frame_ENST00000302763_ENST00000265195_TCGA-EW-A1P8-01A_CTNNA1_chr5_138119060_+_SIL1_chr5_138386690_length(transcript)=1851nt_BP=391nt
TCCTCCTCCTAGCCGGACTGGAGGGAGACAAAGCAGCGCCCGTCTGCTTCGGGCCTCTGGAATTTAGCGCTCGCCCAGCTAGCCGCAGAA
ATGACTGCTGTCCATGCAGGCAACATAAACTTCAAGTGGGATCCTAAAAGTCTAGAGATCAGGACTCTGGCAGTTGAGAGACTGTTGGAG
CCTCTTGTTACACAGGTTACAACCCTTGTAAACACCAATAGTAAAGGGCCCTCTAATAAGAAGAGAGGTCGTTCTAAGAAGGCCCATGTT
TTGGCTGCATCTGTTGAACAAGCAACTGAGAATTTCTTGGAGAAGGGGGATAAAATTGCGAAGGAGAGCCAGTTTCTCAAGGAGGAGCTT
GTGGCTGCTGTAGAAGATGTTCGAAAACAAGATGTTCGCCGAGGAGGAGGCTGAGCTGACCCAGGAGATGTCCCCAGAGAAGCTGCAGCA
GTATCGCCAGGTACACCTCCTGCCAGGCCTGTGGGAACAGGGCTGGTGCGAGATCACGGCCCACCTCCTGGCGCTGCCCGAGCATGATGC
CCGTGAGAAGGTGCTGCAGACACTGGGCGTCCTCCTGACCACCTGCCGGGACCGCTACCGTCAGGACCCCCAGCTCGGCAGGACACTGGC
CAGCCTGCAGGCTGAGTACCAGGTGCTGGCCAGCCTGGAGCTGCAGGATGGTGAGGACGAGGGCTACTTCCAGGAGCTGCTGGGCTCTGT
CAACAGCTTGCTGAAGGAGCTGAGATGAGGCCCCACACCAGGACTGGACTGGGATGCCGCTAGTGAGGCTGAGGGGTGCCAGCGTGGGTG
GGCTTCTCAGGCAGGAGGACATCTTGGCAGTGCTGGCTTGGCCATTAAATGGAAACCTGAAGGCCATCCTCTTTCTGCTGTGTGTCTGTG
TAGACTGGGCACAGCCCTGTGGCCGGGGGGTCAGGTGAGTGGTTGGGTGATGGGCTCTGCTGACGTGCAGGGCTCAGCCCAGGGCATCCA
GGAACAGGCTCCAGGGCAGGAACCTGGGCCCAGGAGTTGCAAGTCTCTGCTTCTTACCAAGCAGCAGCTCTGTACCTTGGGAAGTCGCTT
AATTGCTCTGAGCTTGTTTCCTCATCTGTCAGTCCTGTTTGCACTGTGCTCCCTGCTGCGCCACTTCCCCTATGCCCAGCGGCAGTTCCT
GAAGCTCGGGGGGCTGCAGGTCCTGAGGACCCTGGTGCAGGAGAAGGGCACGGAGGTGCTCGCCGTGCGCGTGGTCACACTGCTCTACGA
CCTGGTCACGGAGAAGCAACCCCAAGGTCCAGGTGGAGGCCATCGAAGGGGGAGCCCTGCAGAAGCTGCTGGTCATCCTGGCCACGGAGC
AGCCGCTCACTGCAAAGAAGAAGATGGACAATGCGCAGGACCTGCTTTCCTTTGGTGGTCTTCAAGTGGTGATCAATGGGCTGAACAGCA
CAGAGCCCCTCGTGAAGGAGTATGCTGCGTTTGTGCTGGGCGCTGCCTTTTCCAGGCAAGGCAGGCTGAGGTAAAGCGGCTCTTCCGCCC
CATTGAGGAACTGAAGAAAGACTTTGATGAGCTGAATGTTGTCATTGAGACTGACATGCAGATCATGGTACGGCTGATCAACAAGTTCAA
TAGTTCCAGCTCCAGTTTGGAAGAGAAGATTGCTGCGCTCTTTGATCTTGAATATTATGTCCATCAGGCTGGATATCAACACCAACACCT
ACACATCTCAGGATCTCAAGAGTGCACTGGCAAAATTCAAGGAGGGGGCAGAGATGGAGAGTTCAAAGGAAGACAAGCTGGGGAAAGAGA

>In-frame_ENST00000302763_ENST00000265195_TCGA-EW-A1P8-01A_CTNNA1_chr5_138119060_+_SIL1_chr5_138386690_length(amino acids)=362AA_start in transcript=763_stop in transcript=1848
MDWDAASEAEGCQRGWASQAGGHLGSAGLAIKWKPEGHPLSAVCLCRLGTALWPGGQVSGWVMGSADVQGSAQGIQEQAPGQEPGPRSCK
SLLLTKQQLCTLGSRLIALSLFPHLSVLFALCSLLRHFPYAQRQFLKLGGLQVLRTLVQEKGTEVLAVRVVTLLYDLVTEKQPQGPGGGH
RRGSPAEAAGHPGHGAAAHCKEEDGQCAGPAFLWWSSSGDQWAEQHRAPREGVCCVCAGRCLFQARQAEVKRLFRPIEELKKDFDELNVV
IETDMQIMVRLINKFNSSSSSLEEKIAALFDLEYYVHQAGYQHQHLHISGSQECTGKIQGGGRDGEFKGRQAGEREAKLQYEDKFRNNLK

--------------------------------------------------------------
>In-frame_ENST00000302763_ENST00000509534_TCGA-EW-A1P8-01A_CTNNA1_chr5_138119060_+_SIL1_chr5_138386690_length(transcript)=1582nt_BP=391nt
TCCTCCTCCTAGCCGGACTGGAGGGAGACAAAGCAGCGCCCGTCTGCTTCGGGCCTCTGGAATTTAGCGCTCGCCCAGCTAGCCGCAGAA
ATGACTGCTGTCCATGCAGGCAACATAAACTTCAAGTGGGATCCTAAAAGTCTAGAGATCAGGACTCTGGCAGTTGAGAGACTGTTGGAG
CCTCTTGTTACACAGGTTACAACCCTTGTAAACACCAATAGTAAAGGGCCCTCTAATAAGAAGAGAGGTCGTTCTAAGAAGGCCCATGTT
TTGGCTGCATCTGTTGAACAAGCAACTGAGAATTTCTTGGAGAAGGGGGATAAAATTGCGAAGGAGAGCCAGTTTCTCAAGGAGGAGCTT
GTGGCTGCTGTAGAAGATGTTCGAAAACAAGATGTTCGCCGAGGAGGAGGCTGAGCTGACCCAGGAGATGTCCCCAGAGAAGCTGCAGCA
GTATCGCCAGGTACACCTCCTGCCAGGCCTGTGGGAACAGGGCTGGTGCGAGATCACGGCCCACCTCCTGGCGCTGCCCGAGCATGATGC
CCGTGAGAAGGTGCTGCAGACACTGGGCGTCCTCCTGACCACCTGCCGGGACCGCTACCGTCAGGACCCCCAGCTCGGCAGGACACTGGC
CAGCCTGCAGGCTGAGTACCAGGTGCTGGCCAGCCTGGAGCTGCAGGATGGTGAGGACGAGGGCTACTTCCAGGAGCTGCTGGGCTCTGT
CAACAGCTTGCTGAAGGAGCTGAGATGAGGCCCCACACCAGGACTGGACTGGGATGCCGCTAGTGAGGCTGAGGGGTGCCAGCGTGGGTG
GGCTTCTCAGGCAGGAGGACATCTTGGCAGTGGTCCTGTTTGCACTGTGCTCCCTGCTGCGCCACTTCCCCTATGCCCAGCGGCAGTTCC
TGAAGCTCGGGGGGCTGCAGGTCCTGAGGACCCTGGTGCAGGAGAAGGGCACGGAGGTGCTCGCCGTGCGCGTGGTCACACTGCTCTACG
ACCTGGTCACGGAGAAGCAACCCCAAGGTCCAGGTGGAGGCCATCGAAGGGGGAGCCCTGCAGAAGCTGCTGGTCATCCTGGCCACGGAG
CAGCCGCTCACTGCAAAGAAGAAGATGGACAATGCGCAGGACCTGCTTTCCTTTGGTGGTCTTCAAGTGGTGATCAATGGGCTGAACAGC
ACAGAGCCCCTCGTGAAGGAGTATGCTGCGTTTGTGCTGGGCGCTGCCTTTTCCAGGCAAGGCAGGCTGAGGTAAAGCGGCTCTTCCGCC
CCATTGAGGAACTGAAGAAAGACTTTGATGAGCTGAATGTTGTCATTGAGACTGACATGCAGATCATGGTACGGCTGATCAACAAGTTCA
ATAGTTCCAGCTCCAGTTTGGAAGAGAAGATTGCTGCGCTCTTTGATCTTGAATATTATGTCCATCAGGCTGGATATCAACACCAACACC
TACACATCTCAGGATCTCAAGAGTGCACTGGCAAAATTCAAGGAGGGGGCAGAGATGGAGAGTTCAAAGGAAGACAAGCTGGGGAAAGAG

>In-frame_ENST00000302763_ENST00000509534_TCGA-EW-A1P8-01A_CTNNA1_chr5_138119060_+_SIL1_chr5_138386690_length(amino acids)=269AA_start in transcript=773_stop in transcript=1579
MPLVRLRGASVGGLLRQEDILAVVLFALCSLLRHFPYAQRQFLKLGGLQVLRTLVQEKGTEVLAVRVVTLLYDLVTEKQPQGPGGGHRRG
SPAEAAGHPGHGAAAHCKEEDGQCAGPAFLWWSSSGDQWAEQHRAPREGVCCVCAGRCLFQARQAEVKRLFRPIEELKKDFDELNVVIET

--------------------------------------------------------------
>In-frame_ENST00000518825_ENST00000394817_TCGA-EW-A1P8-01A_CTNNA1_chr5_138119060_+_SIL1_chr5_138386690_length(transcript)=1797nt_BP=303nt
AAATGACTGCTGTCCATGCAGGCAACATAAACTTCAAGTGGGATCCTAAAAGTCTAGAGATCAGGACTCTGGCAGTTGAGAGACTGTTGG
AGCCTCTTGTTACACAGGTTACAACCCTTGTAAACACCAATAGTAAAGGGCCCTCTAATAAGAAGAGAGGTCGTTCTAAGAAGGCCCATG
TTTTGGCTGCATCTGTTGAACAAGCAACTGAGAATTTCTTGGAGAAGGGGGATAAAATTGCGAAGGAGAGCCAGTTTCTCAAGGAGGAGC
TTGTGGCTGCTGTAGAAGATGTTCGAAAACAAGATGTTCGCCGAGGAGGAGGCTGAGCTGACCCAGGAGATGTCCCCAGAGAAGCTGCAG
CAGTATCGCCAGGTACACCTCCTGCCAGGCCTGTGGGAACAGGGCTGGTGCGAGATCACGGCCCACCTCCTGGCGCTGCCCGAGCATGAT
GCCCGTGAGAAGGTGCTGCAGACACTGGGCGTCCTCCTGACCACCTGCCGGGACCGCTACCGTCAGGACCCCCAGCTCGGCAGGACACTG
GCCAGCCTGCAGGCTGAGTACCAGGTGCTGGCCAGCCTGGAGCTGCAGGATGGTGAGGACGAGGGCTACTTCCAGGAGCTGCTGGGCTCT
GTCAACAGCTTGCTGAAGGAGCTGAGATGAGGCCCCACACCAGGACTGGACTGGGATGCCGCTAGTGAGGCTGAGGGGTGCCAGCGTGGG
TGGGCTTCTCAGGCAGGAGGACATCTTGGCAGTGCTGGCTTGGCCATTAAATGGAAACCTGAAGGCCATCCTCTTTCTGCTGTGTGTCTG
TGTAGACTGGGCACAGCCCTGTGGCCGGGGGGTCAGGTGAGTGGTTGGGTGATGGGCTCTGCTGACGTGCAGGGCTCAGCCCAGGGCATC
CAGGAACAGGCTCCAGGGCAGGAACCTGGGCCCAGGAGTTGCAAGTCTCTGCTTCTTACCAAGCAGCAGCTCTGTACCTTGGGAAGTCGC
TTAATTGCTCTGAGCTTGTTTCCTCATCTGTCAGGAGTGCCATTAAAGGAGAAAAATCACGTAGAAAGTCCTGTTTGCACTGTGCTCCCT
GCTGCGCCACTTCCCCTATGCCCAGCGGCAGTTCCTGAAGCTCGGGGGGCTGCAGGTCCTGAGGACCCTGGTGCAGGAGAAGGGCACGGA
GGTGCTCGCCGTGCGCGTGGTCACACTGCTCTACGACCTGGTCACGGAGAAGCAACCCCAAGGTCCAGGTGGAGGCCATCGAAGGGGGAG
CCCTGCAGAAGCTGCTGGTCATCCTGGCCACGGAGCAGCCGCTCACTGCAAAGAAGAAGATGGACAATGCGCAGGACCTGCTTTCCTTTG
GTGGTCTTCAAGTGGTGATCAATGGGCTGAACAGCACAGAGCCCCTCGTGAAGGAGTATGCTGCGTTTGTGCTGGGCGCTGCCTTTTCCA
GGCAAGGCAGGCTGAGGTAAAGCGGCTCTTCCGCCCCATTGAGGAACTGAAGAAAGACTTTGATGAGCTGAATGTTGTCATTGAGACTGA
CATGCAGATCATGGTACGGCTGATCAACAAGTTCAATAGTTCCAGCTCCAGTTTGGAAGAGAAGATTGCTGCGCTCTTTGATCTTGAATA
TTATGTCCATCAGGCTGGATATCAACACCAACACCTACACATCTCAGGATCTCAAGAGTGCACTGGCAAAATTCAAGGAGGGGGCAGAGA

>In-frame_ENST00000518825_ENST00000394817_TCGA-EW-A1P8-01A_CTNNA1_chr5_138119060_+_SIL1_chr5_138386690_length(amino acids)=245AA_start in transcript=1060_stop in transcript=1794
MFALCSLLRHFPYAQRQFLKLGGLQVLRTLVQEKGTEVLAVRVVTLLYDLVTEKQPQGPGGGHRRGSPAEAAGHPGHGAAAHCKEEDGQC
AGPAFLWWSSSGDQWAEQHRAPREGVCCVCAGRCLFQARQAEVKRLFRPIEELKKDFDELNVVIETDMQIMVRLINKFNSSSSSLEEKIA

--------------------------------------------------------------
>In-frame_ENST00000518825_ENST00000265195_TCGA-EW-A1P8-01A_CTNNA1_chr5_138119060_+_SIL1_chr5_138386690_length(transcript)=1763nt_BP=303nt
AAATGACTGCTGTCCATGCAGGCAACATAAACTTCAAGTGGGATCCTAAAAGTCTAGAGATCAGGACTCTGGCAGTTGAGAGACTGTTGG
AGCCTCTTGTTACACAGGTTACAACCCTTGTAAACACCAATAGTAAAGGGCCCTCTAATAAGAAGAGAGGTCGTTCTAAGAAGGCCCATG
TTTTGGCTGCATCTGTTGAACAAGCAACTGAGAATTTCTTGGAGAAGGGGGATAAAATTGCGAAGGAGAGCCAGTTTCTCAAGGAGGAGC
TTGTGGCTGCTGTAGAAGATGTTCGAAAACAAGATGTTCGCCGAGGAGGAGGCTGAGCTGACCCAGGAGATGTCCCCAGAGAAGCTGCAG
CAGTATCGCCAGGTACACCTCCTGCCAGGCCTGTGGGAACAGGGCTGGTGCGAGATCACGGCCCACCTCCTGGCGCTGCCCGAGCATGAT
GCCCGTGAGAAGGTGCTGCAGACACTGGGCGTCCTCCTGACCACCTGCCGGGACCGCTACCGTCAGGACCCCCAGCTCGGCAGGACACTG
GCCAGCCTGCAGGCTGAGTACCAGGTGCTGGCCAGCCTGGAGCTGCAGGATGGTGAGGACGAGGGCTACTTCCAGGAGCTGCTGGGCTCT
GTCAACAGCTTGCTGAAGGAGCTGAGATGAGGCCCCACACCAGGACTGGACTGGGATGCCGCTAGTGAGGCTGAGGGGTGCCAGCGTGGG
TGGGCTTCTCAGGCAGGAGGACATCTTGGCAGTGCTGGCTTGGCCATTAAATGGAAACCTGAAGGCCATCCTCTTTCTGCTGTGTGTCTG
TGTAGACTGGGCACAGCCCTGTGGCCGGGGGGTCAGGTGAGTGGTTGGGTGATGGGCTCTGCTGACGTGCAGGGCTCAGCCCAGGGCATC
CAGGAACAGGCTCCAGGGCAGGAACCTGGGCCCAGGAGTTGCAAGTCTCTGCTTCTTACCAAGCAGCAGCTCTGTACCTTGGGAAGTCGC
TTAATTGCTCTGAGCTTGTTTCCTCATCTGTCAGTCCTGTTTGCACTGTGCTCCCTGCTGCGCCACTTCCCCTATGCCCAGCGGCAGTTC
CTGAAGCTCGGGGGGCTGCAGGTCCTGAGGACCCTGGTGCAGGAGAAGGGCACGGAGGTGCTCGCCGTGCGCGTGGTCACACTGCTCTAC
GACCTGGTCACGGAGAAGCAACCCCAAGGTCCAGGTGGAGGCCATCGAAGGGGGAGCCCTGCAGAAGCTGCTGGTCATCCTGGCCACGGA
GCAGCCGCTCACTGCAAAGAAGAAGATGGACAATGCGCAGGACCTGCTTTCCTTTGGTGGTCTTCAAGTGGTGATCAATGGGCTGAACAG
CACAGAGCCCCTCGTGAAGGAGTATGCTGCGTTTGTGCTGGGCGCTGCCTTTTCCAGGCAAGGCAGGCTGAGGTAAAGCGGCTCTTCCGC
CCCATTGAGGAACTGAAGAAAGACTTTGATGAGCTGAATGTTGTCATTGAGACTGACATGCAGATCATGGTACGGCTGATCAACAAGTTC
AATAGTTCCAGCTCCAGTTTGGAAGAGAAGATTGCTGCGCTCTTTGATCTTGAATATTATGTCCATCAGGCTGGATATCAACACCAACAC
CTACACATCTCAGGATCTCAAGAGTGCACTGGCAAAATTCAAGGAGGGGGCAGAGATGGAGAGTTCAAAGGAAGACAAGCTGGGGAAAGA

>In-frame_ENST00000518825_ENST00000265195_TCGA-EW-A1P8-01A_CTNNA1_chr5_138119060_+_SIL1_chr5_138386690_length(amino acids)=362AA_start in transcript=675_stop in transcript=1760
MDWDAASEAEGCQRGWASQAGGHLGSAGLAIKWKPEGHPLSAVCLCRLGTALWPGGQVSGWVMGSADVQGSAQGIQEQAPGQEPGPRSCK
SLLLTKQQLCTLGSRLIALSLFPHLSVLFALCSLLRHFPYAQRQFLKLGGLQVLRTLVQEKGTEVLAVRVVTLLYDLVTEKQPQGPGGGH
RRGSPAEAAGHPGHGAAAHCKEEDGQCAGPAFLWWSSSGDQWAEQHRAPREGVCCVCAGRCLFQARQAEVKRLFRPIEELKKDFDELNVV
IETDMQIMVRLINKFNSSSSSLEEKIAALFDLEYYVHQAGYQHQHLHISGSQECTGKIQGGGRDGEFKGRQAGEREAKLQYEDKFRNNLK

--------------------------------------------------------------
>In-frame_ENST00000518825_ENST00000509534_TCGA-EW-A1P8-01A_CTNNA1_chr5_138119060_+_SIL1_chr5_138386690_length(transcript)=1494nt_BP=303nt
AAATGACTGCTGTCCATGCAGGCAACATAAACTTCAAGTGGGATCCTAAAAGTCTAGAGATCAGGACTCTGGCAGTTGAGAGACTGTTGG
AGCCTCTTGTTACACAGGTTACAACCCTTGTAAACACCAATAGTAAAGGGCCCTCTAATAAGAAGAGAGGTCGTTCTAAGAAGGCCCATG
TTTTGGCTGCATCTGTTGAACAAGCAACTGAGAATTTCTTGGAGAAGGGGGATAAAATTGCGAAGGAGAGCCAGTTTCTCAAGGAGGAGC
TTGTGGCTGCTGTAGAAGATGTTCGAAAACAAGATGTTCGCCGAGGAGGAGGCTGAGCTGACCCAGGAGATGTCCCCAGAGAAGCTGCAG
CAGTATCGCCAGGTACACCTCCTGCCAGGCCTGTGGGAACAGGGCTGGTGCGAGATCACGGCCCACCTCCTGGCGCTGCCCGAGCATGAT
GCCCGTGAGAAGGTGCTGCAGACACTGGGCGTCCTCCTGACCACCTGCCGGGACCGCTACCGTCAGGACCCCCAGCTCGGCAGGACACTG
GCCAGCCTGCAGGCTGAGTACCAGGTGCTGGCCAGCCTGGAGCTGCAGGATGGTGAGGACGAGGGCTACTTCCAGGAGCTGCTGGGCTCT
GTCAACAGCTTGCTGAAGGAGCTGAGATGAGGCCCCACACCAGGACTGGACTGGGATGCCGCTAGTGAGGCTGAGGGGTGCCAGCGTGGG
TGGGCTTCTCAGGCAGGAGGACATCTTGGCAGTGGTCCTGTTTGCACTGTGCTCCCTGCTGCGCCACTTCCCCTATGCCCAGCGGCAGTT
CCTGAAGCTCGGGGGGCTGCAGGTCCTGAGGACCCTGGTGCAGGAGAAGGGCACGGAGGTGCTCGCCGTGCGCGTGGTCACACTGCTCTA
CGACCTGGTCACGGAGAAGCAACCCCAAGGTCCAGGTGGAGGCCATCGAAGGGGGAGCCCTGCAGAAGCTGCTGGTCATCCTGGCCACGG
AGCAGCCGCTCACTGCAAAGAAGAAGATGGACAATGCGCAGGACCTGCTTTCCTTTGGTGGTCTTCAAGTGGTGATCAATGGGCTGAACA
GCACAGAGCCCCTCGTGAAGGAGTATGCTGCGTTTGTGCTGGGCGCTGCCTTTTCCAGGCAAGGCAGGCTGAGGTAAAGCGGCTCTTCCG
CCCCATTGAGGAACTGAAGAAAGACTTTGATGAGCTGAATGTTGTCATTGAGACTGACATGCAGATCATGGTACGGCTGATCAACAAGTT
CAATAGTTCCAGCTCCAGTTTGGAAGAGAAGATTGCTGCGCTCTTTGATCTTGAATATTATGTCCATCAGGCTGGATATCAACACCAACA
CCTACACATCTCAGGATCTCAAGAGTGCACTGGCAAAATTCAAGGAGGGGGCAGAGATGGAGAGTTCAAAGGAAGACAAGCTGGGGAAAG

>In-frame_ENST00000518825_ENST00000509534_TCGA-EW-A1P8-01A_CTNNA1_chr5_138119060_+_SIL1_chr5_138386690_length(amino acids)=269AA_start in transcript=685_stop in transcript=1491
MPLVRLRGASVGGLLRQEDILAVVLFALCSLLRHFPYAQRQFLKLGGLQVLRTLVQEKGTEVLAVRVVTLLYDLVTEKQPQGPGGGHRRG
SPAEAAGHPGHGAAAHCKEEDGQCAGPAFLWWSSSGDQWAEQHRAPREGVCCVCAGRCLFQARQAEVKRLFRPIEELKKDFDELNVVIET

--------------------------------------------------------------

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Fusion Gene PPI Analysis for CTNNA1-SIL1


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page.


check button Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with
TgeneSIL1chr5:138119060chr5:138386690ENST000002651950111_2560462.0HSPA5 and localization to the endoplasmic reticulum
TgeneSIL1chr5:138119060chr5:138386690ENST000003948170101_2560462.0HSPA5 and localization to the endoplasmic reticulum


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with
HgeneCTNNA1chr5:138119060chr5:138386690ENST00000302763+318325_394100.33333333333333907.0alpha-actinin
HgeneCTNNA1chr5:138119060chr5:138386690ENST00000540387+112325_3940537.0alpha-actinin
HgeneCTNNA1chr5:138119060chr5:138386690ENST00000302763+31897_148100.33333333333333907.0JUP and CTNNB1
HgeneCTNNA1chr5:138119060chr5:138386690ENST00000540387+11297_1480537.0JUP and CTNNB1


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs for CTNNA1-SIL1


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases for CTNNA1-SIL1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneCTNNA1C1708349Hereditary Diffuse Gastric Cancer3ORPHANET
HgeneCTNNA1C0023467Leukemia, Myelocytic, Acute1CTD_human
HgeneCTNNA1C0026998Acute Myeloid Leukemia, M11CTD_human
HgeneCTNNA1C0238198Gastrointestinal Stromal Tumors1CTD_human
HgeneCTNNA1C1837029Macular Dystrophy, Butterfly-Shaped Pigmentary, 21CTD_human;UNIPROT
HgeneCTNNA1C1868569Patterned dystrophy of retinal pigment epithelium1CTD_human
HgeneCTNNA1C1879321Acute Myeloid Leukemia (AML-M2)1CTD_human
HgeneCTNNA1C2713368Hematopoetic Myelodysplasia1CTD_human
HgeneCTNNA1C3179349Gastrointestinal Stromal Sarcoma1CTD_human
HgeneCTNNA1C3463824MYELODYSPLASTIC SYNDROME1CTD_human
HgeneCTNNA1C4511237Butterfly-shaped pigmentary macular dystrophy1ORPHANET
TgeneSIL1C0024814Marinesco-Sjogren syndrome5CTD_human;GENOMICS_ENGLAND;ORPHANET
TgeneSIL1C0033578Prostatic Neoplasms1CTD_human
TgeneSIL1C0376358Malignant neoplasm of prostate1CTD_human
TgeneSIL1C3495676Anorectal Malformations1GENOMICS_ENGLAND