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	Fusion Gene Summary
	Fusion Gene ORF analysis
	Fusion Genomic Features
	Fusion Protein Features
	Fusion Gene Sequence
	Fusion Gene PPI analysis
	Related Drugs
	Related Diseases

Fusion gene:LPP-CLDN1 (FusionGDB2 ID:49310)

Fusion Gene Summary for LPP-CLDN1

Fusion gene summary

Fusion gene information	Fusion gene name: LPP-CLDN1
	Fusion gene ID: 49310
		Hgene	Tgene
	Gene symbol	LPP	CLDN1
	Gene ID	4026	9076
	Gene name	LIM domain containing preferred translocation partner in lipoma	claudin 1
	Synonyms	-	CLD1\|ILVASC\|SEMP1
	Cytomap	3q27.3-q28	3q28
	Type of gene	protein-coding	protein-coding
	Description	lipoma-preferred partnerLIM proteinlipoma preferred partner	claudin-1senescence-associated epithelial membrane protein 1
	Modification date	20200313	20200313
	UniProtAcc	.	P56856
	Ensembl transtripts involved in fusion gene	ENST00000448637, ENST00000312675, ENST00000543006, ENST00000471917,	ENST00000295522,
Fusion gene scores	* DoF score	41 X 30 X 15=18450	5 X 3 X 4=60
	# samples	52	6
	** MAII score	log2(52/18450*10)=-5.14896538280667 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(6/60*10)=0
Context	PubMed: LPP [Title/Abstract] AND CLDN1 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint	LPP(188124101)-CLDN1(190030825), # samples:3
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)

Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez

Partner	Gene	GO ID	GO term	PubMed ID
Tgene	CLDN1	GO:0051259	protein complex oligomerization	23704991

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

Fusion gene breakpoints across CLDN1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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.

Source	Disease	Sample	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
ChimerDB4	ESCA	TCGA-LN-A4A2	LPP	chr3	188124101	+	CLDN1	chr3	190030825	-
ChimerDB4	ESCA	TCGA-LN-A4A2	LPP	chr3	188124101	+	CLDN1	chr3	190030825	-
ChimerDB4	ESCA	TCGA-LN-A4A2	LPP	chr3	188124101	+	CLDN1	chr3	190030825	-

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Fusion Gene ORF analysis for LPP-CLDN1

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.

ORF	Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
In-frame	ENST00000448637	ENST00000295522	LPP	chr3	188124101	+	CLDN1	chr3	190030825	-
In-frame	ENST00000312675	ENST00000295522	LPP	chr3	188124101	+	CLDN1	chr3	190030825	-
In-frame	ENST00000543006	ENST00000295522	LPP	chr3	188124101	+	CLDN1	chr3	190030825	-
intron-3CDS	ENST00000471917	ENST00000295522	LPP	chr3	188124101	+	CLDN1	chr3	190030825	-

ORFfinder result based on the fusion transcript sequence of in-frame fusion genes.

Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	Seq length (transcript)	BP loci (transcript)	Predicted start (transcript)	Predicted stop (transcript)	Seq length (amino acids)
ENST00000448637	LPP	chr3	188124101	+	ENST00000295522	CLDN1	chr3	190030825	-	3328	339	92	751	219
ENST00000312675	LPP	chr3	188124101	+	ENST00000295522	CLDN1	chr3	190030825	-	3428	439	123	851	242
ENST00000543006	LPP	chr3	188124101	+	ENST00000295522	CLDN1	chr3	190030825	-	3371	382	9	794	261

DeepORF 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.

Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	No-coding score	Coding score
ENST00000448637	ENST00000295522	LPP	chr3	188124101	+	CLDN1	chr3	190030825	-	0.015034174	0.9849658
ENST00000312675	ENST00000295522	LPP	chr3	188124101	+	CLDN1	chr3	190030825	-	0.018426398	0.98157364
ENST00000543006	ENST00000295522	LPP	chr3	188124101	+	CLDN1	chr3	190030825	-	0.013826531	0.9861734

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Fusion Genomic Features for LPP-CLDN1

FusionAI 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.

Hgene

Hchr

Hbp

Hstrand

Tgene

Tchr

Tbp

Tstrand

1-p

p (fusion gene breakpoint)

Distribution 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.

Distribution 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 LPP-CLDN1

Go to
FGviewer for the breakpoints of chr3:188124101-chr3:190030825
.
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.

Main function of each fusion partner protein. (from UniProt)

Hgene	Tgene
.	CLDN1 P56856
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: Plays a major role in tight junction-specific obliteration of the intercellular space, through calcium-independent cell-adhesion activity. {ECO:0000250}.

Retention 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.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

Tgene

CLDN1

chr3:188124101

chr3:190030825

ENST00000295522

103_115

74.33333333333333

212.0

Topological domain

Cytoplasmic

Tgene

CLDN1

chr3:188124101

chr3:190030825

ENST00000295522

137_163

74.33333333333333

212.0

Topological domain

Extracellular

Tgene

CLDN1

chr3:188124101

chr3:190030825

ENST00000295522

185_211

74.33333333333333

212.0

Topological domain

Cytoplasmic

Tgene

CLDN1

chr3:188124101

chr3:190030825

ENST00000295522

116_136

74.33333333333333

212.0

Transmembrane

Helical

Tgene

CLDN1

chr3:188124101

chr3:190030825

ENST00000295522

164_184

74.33333333333333

212.0

Transmembrane

Helical

Tgene

CLDN1

chr3:188124101

chr3:190030825

ENST00000295522

82_102

74.33333333333333

212.0

Transmembrane

Helical

- In-frame and not-retained protein feature among the 13 regional features.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

Hgene

LPP

chr3:188124101

chr3:190030825

ENST00000312675

41_370

64.33333333333333

613.0

Compositional bias

Note=Pro-rich

Hgene

LPP

chr3:188124101

chr3:190030825

ENST00000543006

41_370

64.33333333333333

613.0

Compositional bias

Note=Pro-rich

Hgene

LPP

chr3:188124101

chr3:190030825

ENST00000312675

414_473

64.33333333333333

613.0

Domain

LIM zinc-binding 1

Hgene

LPP

chr3:188124101

chr3:190030825

ENST00000312675

474_534

64.33333333333333

613.0

Domain

LIM zinc-binding 2

Hgene

LPP

chr3:188124101

chr3:190030825

ENST00000312675

535_603

64.33333333333333

613.0

Domain

LIM zinc-binding 3

Hgene

LPP

chr3:188124101

chr3:190030825

ENST00000543006

414_473

64.33333333333333

613.0

Domain

LIM zinc-binding 1

Hgene

LPP

chr3:188124101

chr3:190030825

ENST00000543006

474_534

64.33333333333333

613.0

Domain

LIM zinc-binding 2

Hgene

LPP

chr3:188124101

chr3:190030825

ENST00000543006

535_603

64.33333333333333

613.0

Domain

LIM zinc-binding 3

Tgene

CLDN1

chr3:188124101

chr3:190030825

ENST00000295522

1_7

74.33333333333333

212.0

Topological domain

Cytoplasmic

Tgene

CLDN1

chr3:188124101

chr3:190030825

ENST00000295522

29_81

74.33333333333333

212.0

Topological domain

Extracellular

Tgene

CLDN1

chr3:188124101

chr3:190030825

ENST00000295522

8_28

74.33333333333333

212.0

Transmembrane

Helical

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Fusion Gene Sequence for LPP-CLDN1

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_ENST00000448637_ENST00000295522_TCGA-LN-A4A2_LPP_chr3_188124101_+_CLDN1_chr3_190030825_length(transcript)=3328nt_BP=339nt
ATTTCTCTTCCGAGAGCTTCAGTTTCCTCACGTGCCAAGCGGACGGGTTGGAAGTTGGTCTTTGCCAGCTCTGACACCTTCATTGCAGTT
GGCTGAACCTTGTGTCAACCATCCATTCCAGGAGCCAGCTATCTGAGATTCCAACAATGTCTCACCCATCTTGGCTGCCACCCAAAAGCA
CTGGTGAGCCCCTCGGCCATGTGCCTGCACGGATGGAGACCACCCATTCCTTTGGGAACCCCAGCATTTCAGTGTCTACACAACAGCCAC
CCAAAAAGTTTGCCCCGGTAGTTGCTCCAAAACCTAAGTACAACCCATACAAACAACCTGGAGGTGAGGGCACATTGCAAGCAACCCGTG
CCTTGATGGTGGTTGGCATCCTCCTGGGAGTGATAGCAATCTTTGTGGCCACCGTTGGCATGAAGTGTATGAAGTGCTTGGAAGACGATG
AGGTGCAGAAGATGAGGATGGCTGTCATTGGGGGTGCGATATTTCTTCTTGCAGGTCTGGCTATTTTAGTTGCCACAGCATGGTATGGCA
ATAGAATCGTTCAAGAATTCTATGACCCTATGACCCCAGTCAATGCCAGGTACGAATTTGGTCAGGCTCTCTTCACTGGCTGGGCTGCTG
CTTCTCTCTGCCTTCTGGGAGGTGCCCTACTTTGCTGTTCCTGTCCCCGAAAAACAACCTCTTACCCAACACCAAGGCCCTATCCAAAAC
CTGCACCTTCCAGCGGGAAAGACTACGTGTGACACAGAGGCAAAAGGAGAAAATCATGTTGAAACAAACCGAAAATGGACATTGAGATAC
TATCATTAACATTAGGACCTTAGAATTTTGGGTATTGTAATCTGAAGTATGGTATTACAAAACAAACAAACAAACAAAAAACCCATGTGT
TAAAATACTCAGTGCTAAACATGGCTTAATCTTATTTTATCTTCTTTCCTCAATATAGGAGGGAAGATTTTTCCATTTGTATTACTGCTT
CCCATTGAGTAATCATACTCAACTGGGGGAAGGGGTGCTCCTTAAATATATATAGATATGTATATATACATGTTTTTCTATTAAAAATAG
ACAGTAAAATACTATTCTCATTATGTTGATACTAGCATACTTAAAATATCTCTAAAATAGGTAAATGTATTTAATTCCATATTGATGAAG
ATGTTTATTGGTATATTTTCTTTTTCGTCTATATATACATATGTAACAGTCAAATATCATTTACTCTTCTTCATTAGCTTTGGGTGCCTT
TGCCACAAGACCTAGCCTAATTTACCAAGGATGAATTCTTTCAATTCTTCATGCGTGCCCTTTTCATATACTTATTTTATTTTTTACCAT
AATCTTATAGCACTTGCATCGTTATTAAGCCCTTATTTGTTTTGTGTTTCATTGGTCTCTATCTCCTGAATCTAACACATTTCATAGCCT
ACATTTTAGTTTCTAAAGCCAAGAAGAATTTATTACAAATCAGAACTTTGGAGGCAAATCTTTCTGCATGACCAAAGTGATAAATTCCTG
TTGACCTTCCCACACAATCCCTGTACTCTGACCCATAGCACTCTTGTTTGCTTTGAAAATATTTGTCCAATTGAGTAGCTGCATGCTGTT
CCCCCAGGTGTTGTAACACAACTTTATTGATTGAATTTTTAAGCTACTTATTCATAGTTTTATATCCCCCTAAACTACCTTTTTGTTCCC
CATTCCTTAATTGTATTGTTTTCCCAAGTGTAATTATCATGCGTTTTATATCTTCCTAATAAGGTGTGGTCTGTTTGTCTGAACAAAGTG
CTAGACTTTCTGGAGTGATAATCTGGTGACAAATATTCTCTCTGTAGCTGTAAGCAAGTCACTTAATCTTTCTACCTCTTTTTTCTATCT
GCCAAATTGAGATAATGATACTTAACCAGTTAGAAGAGGTAGTGTGAATATTAATTAGTTTATATTACTCTCATTCTTTGAACATGAACT
ATGCCTATGTAGTGTCTTTATTTGCTCAGCTGGCTGAGACACTGAAGAAGTCACTGAACAAAACCTACACACGTACCTTCATGTGATTCA
CTGCCTTCCTCTCTCTACCAGTCTATTTCCACTGAACAAAACCTACACACATACCTTCATGTGGTTCAGTGCCTTCCTCTCTCTACCAGT
CTATTTCCACTGAACAAAACCTACGCACATACCTTCATGTGGCTCAGTGCCTTCCTCTCTCTACCAGTCTATTTCCATTCTTTCAGCTGT
GTCTGACATGTTTGTGCTCTGTTCCATTTTAACAACTGCTCTTACTTTTCCAGTCTGTACAGAATGCTATTTCACTTGAGCAAGATGATG
TAATGGAAAGGGTGTTGGCATTGGTGTCTGGAGACCTGGATTTGAGTCTTGGTGCTATCAATCACCGTCTGTGTTTGAGCAAGGCATTTG
GCTGCTGTAAGCTTATTGCTTCATCTGTAAGCGGTGGTTTGTAATTCCTGATCTTCCCACCTCACAGTGATGTTGTGGGGATCCAGTGAG
ATAGAATACATGTAAGTGTGGTTTTGTAATTTAAAAAGTGCTATACTAAGGGAAAGAATTGAGGAATTAACTGCATACGTTTTGGTGTTG
CTTTTCAAATGTTTGAAAACAAAAAAAATGTTAAGAAATGGGTTTCTTGCCTTAACCAGTCTCTCAAGTGATGAGACAGTGAAGTAAAAT
TGAGTGCACTAAACAAATAAGATTCTGAGGAAGTCTTATCTTCTGCAGTGAGTATGGCCCGATGCTTTCTGTGGCTAAACAGATGTAATG
GGAAGAAATAAAAGCCTACGTGTTGGTAAATCCAACAGCAAGGGAGATTTTTGAATCATAATAACTCATAAGGTGCTATCTGTTCAGTGA
TGCCCTCAGAGCTCTTGCTGTTAGCTGGCAGCTGACGCTGCTAGGATAGTTAGTTTGGAAATGGTACTTCATAATAAACTACACAAGGAA
AGTCAGCCACTGTGTCTTATGAGGAATTGGACCTAATAAATTTTAGTGTGCCTTCCAAACCTGAGAATATATGCTTTTGGAAGTTAAAAT
TTAAATGGCTTTTGCCACATACATAGATCTTCATGATGTGTGAGTGTAATTCCATGTGGATATCAGTTACCAAACATTACAAAAAAATTT
TATGGCCCAAAATGACCAACGAAATTGTTACAATAGAATTTATCCAATTTTGATCTTTTTATATTCTTCTACCACACCTGGAAACAGACC

>In-frame_ENST00000448637_ENST00000295522_TCGA-LN-A4A2_LPP_chr3_188124101_+_CLDN1_chr3_190030825_length(amino acids)=219AA_start in transcript=92_stop in transcript=751
MNLVSTIHSRSQLSEIPTMSHPSWLPPKSTGEPLGHVPARMETTHSFGNPSISVSTQQPPKKFAPVVAPKPKYNPYKQPGGEGTLQATRA
LMVVGILLGVIAIFVATVGMKCMKCLEDDEVQKMRMAVIGGAIFLLAGLAILVATAWYGNRIVQEFYDPMTPVNARYEFGQALFTGWAAA

--------------------------------------------------------------
>In-frame_ENST00000312675_ENST00000295522_TCGA-LN-A4A2_LPP_chr3_188124101_+_CLDN1_chr3_190030825_length(transcript)=3428nt_BP=439nt
GTCACTTTTATTTGGGGGTGTGGACAGCTGCTTTCCCAGGGGAGTACTTCTTACAGTGGGATTTCAAGACAAGATCGGCCTGAAGAAAAA
TTATATTTGTATATTTTTTAAAAAGTGGGAACTTTGAGGCTCAGAGACAGAGCAGAAGACAGAACCTGGTCTTCTGATTCCCTGTGTTCT
GCTTTTTTCATTGTTCCACTGGACGCTCATCAGAGGGAAGATCTTTTTCCTCAATTGATTCCAACAATGTCTCACCCATCTTGGCTGCCA
CCCAAAAGCACTGGTGAGCCCCTCGGCCATGTGCCTGCACGGATGGAGACCACCCATTCCTTTGGGAACCCCAGCATTTCAGTGTCTACA
CAACAGCCACCCAAAAAGTTTGCCCCGGTAGTTGCTCCAAAACCTAAGTACAACCCATACAAACAACCTGGAGGTGAGGGCACATTGCAA
GCAACCCGTGCCTTGATGGTGGTTGGCATCCTCCTGGGAGTGATAGCAATCTTTGTGGCCACCGTTGGCATGAAGTGTATGAAGTGCTTG
GAAGACGATGAGGTGCAGAAGATGAGGATGGCTGTCATTGGGGGTGCGATATTTCTTCTTGCAGGTCTGGCTATTTTAGTTGCCACAGCA
TGGTATGGCAATAGAATCGTTCAAGAATTCTATGACCCTATGACCCCAGTCAATGCCAGGTACGAATTTGGTCAGGCTCTCTTCACTGGC
TGGGCTGCTGCTTCTCTCTGCCTTCTGGGAGGTGCCCTACTTTGCTGTTCCTGTCCCCGAAAAACAACCTCTTACCCAACACCAAGGCCC
TATCCAAAACCTGCACCTTCCAGCGGGAAAGACTACGTGTGACACAGAGGCAAAAGGAGAAAATCATGTTGAAACAAACCGAAAATGGAC
ATTGAGATACTATCATTAACATTAGGACCTTAGAATTTTGGGTATTGTAATCTGAAGTATGGTATTACAAAACAAACAAACAAACAAAAA
ACCCATGTGTTAAAATACTCAGTGCTAAACATGGCTTAATCTTATTTTATCTTCTTTCCTCAATATAGGAGGGAAGATTTTTCCATTTGT
ATTACTGCTTCCCATTGAGTAATCATACTCAACTGGGGGAAGGGGTGCTCCTTAAATATATATAGATATGTATATATACATGTTTTTCTA
TTAAAAATAGACAGTAAAATACTATTCTCATTATGTTGATACTAGCATACTTAAAATATCTCTAAAATAGGTAAATGTATTTAATTCCAT
ATTGATGAAGATGTTTATTGGTATATTTTCTTTTTCGTCTATATATACATATGTAACAGTCAAATATCATTTACTCTTCTTCATTAGCTT
TGGGTGCCTTTGCCACAAGACCTAGCCTAATTTACCAAGGATGAATTCTTTCAATTCTTCATGCGTGCCCTTTTCATATACTTATTTTAT
TTTTTACCATAATCTTATAGCACTTGCATCGTTATTAAGCCCTTATTTGTTTTGTGTTTCATTGGTCTCTATCTCCTGAATCTAACACAT
TTCATAGCCTACATTTTAGTTTCTAAAGCCAAGAAGAATTTATTACAAATCAGAACTTTGGAGGCAAATCTTTCTGCATGACCAAAGTGA
TAAATTCCTGTTGACCTTCCCACACAATCCCTGTACTCTGACCCATAGCACTCTTGTTTGCTTTGAAAATATTTGTCCAATTGAGTAGCT
GCATGCTGTTCCCCCAGGTGTTGTAACACAACTTTATTGATTGAATTTTTAAGCTACTTATTCATAGTTTTATATCCCCCTAAACTACCT
TTTTGTTCCCCATTCCTTAATTGTATTGTTTTCCCAAGTGTAATTATCATGCGTTTTATATCTTCCTAATAAGGTGTGGTCTGTTTGTCT
GAACAAAGTGCTAGACTTTCTGGAGTGATAATCTGGTGACAAATATTCTCTCTGTAGCTGTAAGCAAGTCACTTAATCTTTCTACCTCTT
TTTTCTATCTGCCAAATTGAGATAATGATACTTAACCAGTTAGAAGAGGTAGTGTGAATATTAATTAGTTTATATTACTCTCATTCTTTG
AACATGAACTATGCCTATGTAGTGTCTTTATTTGCTCAGCTGGCTGAGACACTGAAGAAGTCACTGAACAAAACCTACACACGTACCTTC
ATGTGATTCACTGCCTTCCTCTCTCTACCAGTCTATTTCCACTGAACAAAACCTACACACATACCTTCATGTGGTTCAGTGCCTTCCTCT
CTCTACCAGTCTATTTCCACTGAACAAAACCTACGCACATACCTTCATGTGGCTCAGTGCCTTCCTCTCTCTACCAGTCTATTTCCATTC
TTTCAGCTGTGTCTGACATGTTTGTGCTCTGTTCCATTTTAACAACTGCTCTTACTTTTCCAGTCTGTACAGAATGCTATTTCACTTGAG
CAAGATGATGTAATGGAAAGGGTGTTGGCATTGGTGTCTGGAGACCTGGATTTGAGTCTTGGTGCTATCAATCACCGTCTGTGTTTGAGC
AAGGCATTTGGCTGCTGTAAGCTTATTGCTTCATCTGTAAGCGGTGGTTTGTAATTCCTGATCTTCCCACCTCACAGTGATGTTGTGGGG
ATCCAGTGAGATAGAATACATGTAAGTGTGGTTTTGTAATTTAAAAAGTGCTATACTAAGGGAAAGAATTGAGGAATTAACTGCATACGT
TTTGGTGTTGCTTTTCAAATGTTTGAAAACAAAAAAAATGTTAAGAAATGGGTTTCTTGCCTTAACCAGTCTCTCAAGTGATGAGACAGT
GAAGTAAAATTGAGTGCACTAAACAAATAAGATTCTGAGGAAGTCTTATCTTCTGCAGTGAGTATGGCCCGATGCTTTCTGTGGCTAAAC
AGATGTAATGGGAAGAAATAAAAGCCTACGTGTTGGTAAATCCAACAGCAAGGGAGATTTTTGAATCATAATAACTCATAAGGTGCTATC
TGTTCAGTGATGCCCTCAGAGCTCTTGCTGTTAGCTGGCAGCTGACGCTGCTAGGATAGTTAGTTTGGAAATGGTACTTCATAATAAACT
ACACAAGGAAAGTCAGCCACTGTGTCTTATGAGGAATTGGACCTAATAAATTTTAGTGTGCCTTCCAAACCTGAGAATATATGCTTTTGG
AAGTTAAAATTTAAATGGCTTTTGCCACATACATAGATCTTCATGATGTGTGAGTGTAATTCCATGTGGATATCAGTTACCAAACATTAC
AAAAAAATTTTATGGCCCAAAATGACCAACGAAATTGTTACAATAGAATTTATCCAATTTTGATCTTTTTATATTCTTCTACCACACCTG
GAAACAGACCAATAGACATTTTGGGGTTTTATAATAGGAATTTGTATAAAGCATTACTCTTTTTCAATAAATTGTTTTTTAATTTAAAAA

>In-frame_ENST00000312675_ENST00000295522_TCGA-LN-A4A2_LPP_chr3_188124101_+_CLDN1_chr3_190030825_length(amino acids)=242AA_start in transcript=123_stop in transcript=851
MRLRDRAEDRTWSSDSLCSAFFIVPLDAHQREDLFPQLIPTMSHPSWLPPKSTGEPLGHVPARMETTHSFGNPSISVSTQQPPKKFAPVV
APKPKYNPYKQPGGEGTLQATRALMVVGILLGVIAIFVATVGMKCMKCLEDDEVQKMRMAVIGGAIFLLAGLAILVATAWYGNRIVQEFY

--------------------------------------------------------------
>In-frame_ENST00000543006_ENST00000295522_TCGA-LN-A4A2_LPP_chr3_188124101_+_CLDN1_chr3_190030825_length(transcript)=3371nt_BP=382nt
GTGGGAACTTTGAGGCTCAGAGACAGAGCAGAAGACAGAACCTGGTCTTCTGATTCCCTGTGTTCTGCTTTTTTCATTGTTCCACTGGAC
GCTCATCAGAGGGAAGATCTTTTTCCTCAATTGCATTGCAGTTGGCTGAACCTTGTGTCAACCATCCATTCCAGGAGCCAGCTATCTGAG
ATTCCAACAATGTCTCACCCATCTTGGCTGCCACCCAAAAGCACTGGTGAGCCCCTCGGCCATGTGCCTGCACGGATGGAGACCACCCAT
TCCTTTGGGAACCCCAGCATTTCAGTGTCTACACAACAGCCACCCAAAAAGTTTGCCCCGGTAGTTGCTCCAAAACCTAAGTACAACCCA
TACAAACAACCTGGAGGTGAGGGCACATTGCAAGCAACCCGTGCCTTGATGGTGGTTGGCATCCTCCTGGGAGTGATAGCAATCTTTGTG
GCCACCGTTGGCATGAAGTGTATGAAGTGCTTGGAAGACGATGAGGTGCAGAAGATGAGGATGGCTGTCATTGGGGGTGCGATATTTCTT
CTTGCAGGTCTGGCTATTTTAGTTGCCACAGCATGGTATGGCAATAGAATCGTTCAAGAATTCTATGACCCTATGACCCCAGTCAATGCC
AGGTACGAATTTGGTCAGGCTCTCTTCACTGGCTGGGCTGCTGCTTCTCTCTGCCTTCTGGGAGGTGCCCTACTTTGCTGTTCCTGTCCC
CGAAAAACAACCTCTTACCCAACACCAAGGCCCTATCCAAAACCTGCACCTTCCAGCGGGAAAGACTACGTGTGACACAGAGGCAAAAGG
AGAAAATCATGTTGAAACAAACCGAAAATGGACATTGAGATACTATCATTAACATTAGGACCTTAGAATTTTGGGTATTGTAATCTGAAG
TATGGTATTACAAAACAAACAAACAAACAAAAAACCCATGTGTTAAAATACTCAGTGCTAAACATGGCTTAATCTTATTTTATCTTCTTT
CCTCAATATAGGAGGGAAGATTTTTCCATTTGTATTACTGCTTCCCATTGAGTAATCATACTCAACTGGGGGAAGGGGTGCTCCTTAAAT
ATATATAGATATGTATATATACATGTTTTTCTATTAAAAATAGACAGTAAAATACTATTCTCATTATGTTGATACTAGCATACTTAAAAT
ATCTCTAAAATAGGTAAATGTATTTAATTCCATATTGATGAAGATGTTTATTGGTATATTTTCTTTTTCGTCTATATATACATATGTAAC
AGTCAAATATCATTTACTCTTCTTCATTAGCTTTGGGTGCCTTTGCCACAAGACCTAGCCTAATTTACCAAGGATGAATTCTTTCAATTC
TTCATGCGTGCCCTTTTCATATACTTATTTTATTTTTTACCATAATCTTATAGCACTTGCATCGTTATTAAGCCCTTATTTGTTTTGTGT
TTCATTGGTCTCTATCTCCTGAATCTAACACATTTCATAGCCTACATTTTAGTTTCTAAAGCCAAGAAGAATTTATTACAAATCAGAACT
TTGGAGGCAAATCTTTCTGCATGACCAAAGTGATAAATTCCTGTTGACCTTCCCACACAATCCCTGTACTCTGACCCATAGCACTCTTGT
TTGCTTTGAAAATATTTGTCCAATTGAGTAGCTGCATGCTGTTCCCCCAGGTGTTGTAACACAACTTTATTGATTGAATTTTTAAGCTAC
TTATTCATAGTTTTATATCCCCCTAAACTACCTTTTTGTTCCCCATTCCTTAATTGTATTGTTTTCCCAAGTGTAATTATCATGCGTTTT
ATATCTTCCTAATAAGGTGTGGTCTGTTTGTCTGAACAAAGTGCTAGACTTTCTGGAGTGATAATCTGGTGACAAATATTCTCTCTGTAG
CTGTAAGCAAGTCACTTAATCTTTCTACCTCTTTTTTCTATCTGCCAAATTGAGATAATGATACTTAACCAGTTAGAAGAGGTAGTGTGA
ATATTAATTAGTTTATATTACTCTCATTCTTTGAACATGAACTATGCCTATGTAGTGTCTTTATTTGCTCAGCTGGCTGAGACACTGAAG
AAGTCACTGAACAAAACCTACACACGTACCTTCATGTGATTCACTGCCTTCCTCTCTCTACCAGTCTATTTCCACTGAACAAAACCTACA
CACATACCTTCATGTGGTTCAGTGCCTTCCTCTCTCTACCAGTCTATTTCCACTGAACAAAACCTACGCACATACCTTCATGTGGCTCAG
TGCCTTCCTCTCTCTACCAGTCTATTTCCATTCTTTCAGCTGTGTCTGACATGTTTGTGCTCTGTTCCATTTTAACAACTGCTCTTACTT
TTCCAGTCTGTACAGAATGCTATTTCACTTGAGCAAGATGATGTAATGGAAAGGGTGTTGGCATTGGTGTCTGGAGACCTGGATTTGAGT
CTTGGTGCTATCAATCACCGTCTGTGTTTGAGCAAGGCATTTGGCTGCTGTAAGCTTATTGCTTCATCTGTAAGCGGTGGTTTGTAATTC
CTGATCTTCCCACCTCACAGTGATGTTGTGGGGATCCAGTGAGATAGAATACATGTAAGTGTGGTTTTGTAATTTAAAAAGTGCTATACT
AAGGGAAAGAATTGAGGAATTAACTGCATACGTTTTGGTGTTGCTTTTCAAATGTTTGAAAACAAAAAAAATGTTAAGAAATGGGTTTCT
TGCCTTAACCAGTCTCTCAAGTGATGAGACAGTGAAGTAAAATTGAGTGCACTAAACAAATAAGATTCTGAGGAAGTCTTATCTTCTGCA
GTGAGTATGGCCCGATGCTTTCTGTGGCTAAACAGATGTAATGGGAAGAAATAAAAGCCTACGTGTTGGTAAATCCAACAGCAAGGGAGA
TTTTTGAATCATAATAACTCATAAGGTGCTATCTGTTCAGTGATGCCCTCAGAGCTCTTGCTGTTAGCTGGCAGCTGACGCTGCTAGGAT
AGTTAGTTTGGAAATGGTACTTCATAATAAACTACACAAGGAAAGTCAGCCACTGTGTCTTATGAGGAATTGGACCTAATAAATTTTAGT
GTGCCTTCCAAACCTGAGAATATATGCTTTTGGAAGTTAAAATTTAAATGGCTTTTGCCACATACATAGATCTTCATGATGTGTGAGTGT
AATTCCATGTGGATATCAGTTACCAAACATTACAAAAAAATTTTATGGCCCAAAATGACCAACGAAATTGTTACAATAGAATTTATCCAA
TTTTGATCTTTTTATATTCTTCTACCACACCTGGAAACAGACCAATAGACATTTTGGGGTTTTATAATAGGAATTTGTATAAAGCATTAC

>In-frame_ENST00000543006_ENST00000295522_TCGA-LN-A4A2_LPP_chr3_188124101_+_CLDN1_chr3_190030825_length(amino acids)=261AA_start in transcript=9_stop in transcript=794
MRLRDRAEDRTWSSDSLCSAFFIVPLDAHQREDLFPQLHCSWLNLVSTIHSRSQLSEIPTMSHPSWLPPKSTGEPLGHVPARMETTHSFG
NPSISVSTQQPPKKFAPVVAPKPKYNPYKQPGGEGTLQATRALMVVGILLGVIAIFVATVGMKCMKCLEDDEVQKMRMAVIGGAIFLLAG

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Fusion Gene PPI Analysis for LPP-CLDN1

Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in
ChiPPI page.

Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)

Hgene

Hgene's interactors

Tgene

Tgene's interactors

- Retained PPIs in in-frame fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Still interaction with

- Lost PPIs in in-frame fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

- Retained PPIs, but lost function due to frame-shift fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

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Related Drugs for LPP-CLDN1

Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)

Partner

Gene

UniProtAcc

DrugBank ID

Drug name

Drug activity

Drug type

Drug status

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Related Diseases for LPP-CLDN1

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner	Gene	Disease ID	Disease name	# pubmeds	Source
Hgene	LPP	C0087031	Juvenile-Onset Still Disease	1	CTD_human
Hgene	LPP	C3495559	Juvenile arthritis	1	CTD_human
Hgene	LPP	C3714758	Juvenile psoriatic arthritis	1	CTD_human
Hgene	LPP	C4552091	Polyarthritis, Juvenile, Rheumatoid Factor Negative	1	CTD_human
Hgene	LPP	C4704862	Polyarthritis, Juvenile, Rheumatoid Factor Positive	1	CTD_human
Tgene	CLDN1	C0006142	Malignant neoplasm of breast	2	CTD_human
Tgene	CLDN1	C0678222	Breast Carcinoma	2	CTD_human
Tgene	CLDN1	C1257931	Mammary Neoplasms, Human	2	CTD_human
Tgene	CLDN1	C1458155	Mammary Neoplasms	2	CTD_human
Tgene	CLDN1	C1843355	ICHTHYOSIS, LEUKOCYTE VACUOLES, ALOPECIA, AND SCLEROSING CHOLANGITIS	2	CTD_human;GENOMICS_ENGLAND;ORPHANET
Tgene	CLDN1	C4704874	Mammary Carcinoma, Human	2	CTD_human
Tgene	CLDN1	C0007621	Neoplastic Cell Transformation	1	CTD_human
Tgene	CLDN1	C0011616	Contact Dermatitis	1	CTD_human
Tgene	CLDN1	C0014175	Endometriosis	1	CTD_human
Tgene	CLDN1	C0162351	Contact hypersensitivity	1	CTD_human
Tgene	CLDN1	C0269102	Endometrioma	1	CTD_human