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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:FAM13C-S100P (FusionGDB2 ID:28561)

Fusion Gene Summary for FAM13C-S100P

check button Fusion gene summary
Fusion gene informationFusion gene name: FAM13C-S100P
Fusion gene ID: 28561
HgeneTgene
Gene symbol

FAM13C

S100P

Gene ID

220965

6286

Gene namefamily with sequence similarity 13 member CS100 calcium binding protein P
SynonymsFAM13C1MIG9
Cytomap

10q21.1

4p16.1

Type of geneprotein-codingprotein-coding
Descriptionprotein FAM13Cfamily with sequence similarity 13, member C1protein S100-Pmigration-inducing gene 9 proteinprotein S100-E
Modification date2020031320200313
UniProtAcc

Q8NE31

S100PBP

Ensembl transtripts involved in fusion geneENST00000277705, ENST00000373867, 
ENST00000373868, ENST00000419214, 
ENST00000422313, ENST00000435852, 
ENST00000442566, ENST00000468840, 
ENST00000510215, 		ENST00000513778, 
ENST00000296370, 
Fusion gene scores* DoF score3 X 3 X 4=361 X 2 X 2=4
# samples 42
** MAII scorelog2(4/36*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0		log2(2/4*10)=2.32192809488736
Context

PubMed: FAM13C [Title/Abstract] AND S100P [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointFAM13C(61112030)-S100P(6698620), # samples:4
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

check buttonFusion gene breakpoints across FAM13C (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check buttonFusion gene breakpoints across S100P (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

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
ChimerDB4CESCTCGA-DS-A1OB-01AFAM13Cchr10

61112030

-S100Pchr4

6698620

+
ChimerDB4PRADTCGA-EJ-8474-01AFAM13Cchr10

61112029

-S100Pchr4

6698619

+
ChimerDB4PRADTCGA-EJ-8474-01AFAM13Cchr10

61112030

-S100Pchr4

6698620

+
ChimerDB4PRADTCGA-EJ-8474FAM13Cchr10

61112029

-S100Pchr4

6698619

+
ChimerDB4PRADTCGA-EJ-8474FAM13Cchr10

61112030

-S100Pchr4

6698620

+


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Fusion Gene ORF analysis for FAM13C-S100P

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-3UTRENST00000277705ENST00000513778FAM13Cchr10

61112030

-S100Pchr4

6698620

+
5CDS-3UTRENST00000277705ENST00000513778FAM13Cchr10

61112029

-S100Pchr4

6698619

+
5CDS-3UTRENST00000373867ENST00000513778FAM13Cchr10

61112030

-S100Pchr4

6698620

+
5CDS-3UTRENST00000373867ENST00000513778FAM13Cchr10

61112029

-S100Pchr4

6698619

+
5CDS-3UTRENST00000373868ENST00000513778FAM13Cchr10

61112030

-S100Pchr4

6698620

+
5CDS-3UTRENST00000373868ENST00000513778FAM13Cchr10

61112029

-S100Pchr4

6698619

+
5CDS-3UTRENST00000419214ENST00000513778FAM13Cchr10

61112030

-S100Pchr4

6698620

+
5CDS-3UTRENST00000419214ENST00000513778FAM13Cchr10

61112029

-S100Pchr4

6698619

+
5CDS-3UTRENST00000422313ENST00000513778FAM13Cchr10

61112030

-S100Pchr4

6698620

+
5CDS-3UTRENST00000422313ENST00000513778FAM13Cchr10

61112029

-S100Pchr4

6698619

+
5CDS-3UTRENST00000435852ENST00000513778FAM13Cchr10

61112030

-S100Pchr4

6698620

+
5CDS-3UTRENST00000435852ENST00000513778FAM13Cchr10

61112029

-S100Pchr4

6698619

+
5CDS-3UTRENST00000442566ENST00000513778FAM13Cchr10

61112030

-S100Pchr4

6698620

+
5CDS-3UTRENST00000442566ENST00000513778FAM13Cchr10

61112029

-S100Pchr4

6698619

+
5CDS-3UTRENST00000468840ENST00000513778FAM13Cchr10

61112030

-S100Pchr4

6698620

+
5CDS-3UTRENST00000468840ENST00000513778FAM13Cchr10

61112029

-S100Pchr4

6698619

+
Frame-shiftENST00000277705ENST00000296370FAM13Cchr10

61112030

-S100Pchr4

6698620

+
Frame-shiftENST00000277705ENST00000296370FAM13Cchr10

61112029

-S100Pchr4

6698619

+
Frame-shiftENST00000373867ENST00000296370FAM13Cchr10

61112030

-S100Pchr4

6698620

+
Frame-shiftENST00000373867ENST00000296370FAM13Cchr10

61112029

-S100Pchr4

6698619

+
Frame-shiftENST00000373868ENST00000296370FAM13Cchr10

61112030

-S100Pchr4

6698620

+
Frame-shiftENST00000373868ENST00000296370FAM13Cchr10

61112029

-S100Pchr4

6698619

+
Frame-shiftENST00000419214ENST00000296370FAM13Cchr10

61112030

-S100Pchr4

6698620

+
Frame-shiftENST00000419214ENST00000296370FAM13Cchr10

61112029

-S100Pchr4

6698619

+
Frame-shiftENST00000422313ENST00000296370FAM13Cchr10

61112030

-S100Pchr4

6698620

+
Frame-shiftENST00000422313ENST00000296370FAM13Cchr10

61112029

-S100Pchr4

6698619

+
Frame-shiftENST00000435852ENST00000296370FAM13Cchr10

61112030

-S100Pchr4

6698620

+
Frame-shiftENST00000435852ENST00000296370FAM13Cchr10

61112029

-S100Pchr4

6698619

+
Frame-shiftENST00000442566ENST00000296370FAM13Cchr10

61112030

-S100Pchr4

6698620

+
Frame-shiftENST00000442566ENST00000296370FAM13Cchr10

61112029

-S100Pchr4

6698619

+
In-frameENST00000468840ENST00000296370FAM13Cchr10

61112030

-S100Pchr4

6698620

+
In-frameENST00000468840ENST00000296370FAM13Cchr10

61112029

-S100Pchr4

6698619

+
intron-3CDSENST00000510215ENST00000296370FAM13Cchr10

61112030

-S100Pchr4

6698620

+
intron-3CDSENST00000510215ENST00000296370FAM13Cchr10

61112029

-S100Pchr4

6698619

+
intron-3UTRENST00000510215ENST00000513778FAM13Cchr10

61112030

-S100Pchr4

6698620

+
intron-3UTRENST00000510215ENST00000513778FAM13Cchr10

61112029

-S100Pchr4

6698619

+

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)
ENST00000468840FAM13Cchr1061112030-ENST00000296370S100Pchr46698620+906629182778198
ENST00000468840FAM13Cchr1061112029-ENST00000296370S100Pchr46698619+906629182778198

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
ENST00000468840ENST00000296370FAM13Cchr1061112030-S100Pchr46698620+0.1010204850.89897954
ENST00000468840ENST00000296370FAM13Cchr1061112029-S100Pchr46698619+0.1010204850.89897954

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Fusion Genomic Features for FAM13C-S100P


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)
FAM13Cchr1061112029-S100Pchr46698619+5.42E-070.9999994
FAM13Cchr1061112029-S100Pchr46698619+5.42E-070.9999994
FAM13Cchr1061112029-S100Pchr46698619+5.42E-070.9999994
FAM13Cchr1061112029-S100Pchr46698619+5.42E-070.9999994
FAM13Cchr1061112029-S100Pchr46698619+5.42E-070.9999994
FAM13Cchr1061112029-S100Pchr46698619+5.42E-070.9999994

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.
genomic feature

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.
genomic feature of top 1%

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Fusion Protein Features for FAM13C-S100P


check button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr10:61112030/chr4:6698620)
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
- How to search
1. Put your fusion gene symbol.
2. Press the tab key until there will be shown the breakpoint information filled.
4. Go down and press 'Search' tab twice.
4. Go down to have the hyperlink of the search result.
5. Click the hyperlink.
6. See the FGviewer result for your fusion gene.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
FAM13C

Q8NE31

S100P

S100PBP

408

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
TgeneS100Pchr10:61112029chr4:6698619ENST000002963700262_734696.0Calcium bindingNote=2%3B high affinity
TgeneS100Pchr10:61112030chr4:6698620ENST000002963700262_734696.0Calcium bindingNote=2%3B high affinity
TgeneS100Pchr10:61112029chr4:6698619ENST000002963700249_844696.0DomainEF-hand 2
TgeneS100Pchr10:61112030chr4:6698620ENST000002963700249_844696.0DomainEF-hand 2

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
TgeneS100Pchr10:61112029chr4:6698619ENST000002963700219_324696.0Calcium bindingNote=1%3B low affinity
TgeneS100Pchr10:61112030chr4:6698620ENST000002963700219_324696.0Calcium bindingNote=1%3B low affinity
TgeneS100Pchr10:61112029chr4:6698619ENST000002963700212_474696.0DomainEF-hand 1
TgeneS100Pchr10:61112030chr4:6698620ENST000002963700212_474696.0DomainEF-hand 1


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Fusion Gene Sequence for FAM13C-S100P


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.
>28561_28561_1_FAM13C-S100P_FAM13C_chr10_61112029_ENST00000468840_S100P_chr4_6698619_ENST00000296370_length(transcript)=906nt_BP=629nt
AAAATTGGTAGGAGACATGTGGAAGAAAGCAAGTCTCCCGGGTATTTCAGCACTTCGGCAGAAACACTGGGGCATTCTCATTGCCAGCCT
CGGGGGGTGGCTGGCACAAAGAGCCCAAGATTAAACGCGGCGCCTGGGCTGGCGAGGTCGGGGTCGTGTGGTAACTCTCCAGGTGCTCCT
CGCTGGATCCCGGGGTCCCAGCCCCGCCGCCGCGCCCCGCCCAGCTCTGTCCCCGCAGCCTCGCGGGCTGCCGGGCTTTGTGGTTCGCCC
GTGCCGCTGGGCCCCTGCTGGGGGTGTCGTTACGAGCATGTGCAGACAGCAGCCCAAGCCTTCAGGATAATTCCTTCAGCAGCACCACTG
TAACAGAGTGTGACGAAGATCCAGTCTCTCTACATGAAGACCAGACTGATTGCTCCAGTCTCAGAGATGAAAACAATAAAGAGAACTACC
CCGACGCAGGGGCTCTGGTAGAAGAGCACGCGCCGCCCTCTTGGGAGCCGCAGCAGCAGAATGTAGAGGCGACCGTGCTGGTGGACAGCG
TATTGCGACCCAGCATGGGCAACTTCAAGTCCAGGAAGCCCAAGTCCATCTTCAAAGCGGAGAGCGGGAGGAGCCACGGAGAAAGTCAGA
GTGGAAAAGACAAGGATGCCGTGGATAAATTGCTCAAGGACCTGGATGCCAATGGAGATGCCCAGGTGGACTTCAGTGAGTTCATAGTGT
TCGTGGCTGCAATCACGTCTGCCTGTCACAAGTACTTTGAGAAGGCAGGACTCAAATGATGCCCTGGAGATGTCACAGATTCCTGGCAGA
GCCATGGTCCCAGGCTTCCCAAAAGTGTTTGTTGGCAATTATTCCCCTAGGCTGAGCCTGCTCATGTACCTCTGATTAATAAATGCTTAT

>28561_28561_1_FAM13C-S100P_FAM13C_chr10_61112029_ENST00000468840_S100P_chr4_6698619_ENST00000296370_length(amino acids)=198AA_BP=149
MDPGVPAPPPRPAQLCPRSLAGCRALWFARAAGPLLGVSLRACADSSPSLQDNSFSSTTVTECDEDPVSLHEDQTDCSSLRDENNKENYP
DAGALVEEHAPPSWEPQQQNVEATVLVDSVLRPSMGNFKSRKPKSIFKAESGRSHGESQSGKDKDAVDKLLKDLDANGDAQVDFSEFIVF

--------------------------------------------------------------
>28561_28561_2_FAM13C-S100P_FAM13C_chr10_61112030_ENST00000468840_S100P_chr4_6698620_ENST00000296370_length(transcript)=906nt_BP=629nt
AAAATTGGTAGGAGACATGTGGAAGAAAGCAAGTCTCCCGGGTATTTCAGCACTTCGGCAGAAACACTGGGGCATTCTCATTGCCAGCCT
CGGGGGGTGGCTGGCACAAAGAGCCCAAGATTAAACGCGGCGCCTGGGCTGGCGAGGTCGGGGTCGTGTGGTAACTCTCCAGGTGCTCCT
CGCTGGATCCCGGGGTCCCAGCCCCGCCGCCGCGCCCCGCCCAGCTCTGTCCCCGCAGCCTCGCGGGCTGCCGGGCTTTGTGGTTCGCCC
GTGCCGCTGGGCCCCTGCTGGGGGTGTCGTTACGAGCATGTGCAGACAGCAGCCCAAGCCTTCAGGATAATTCCTTCAGCAGCACCACTG
TAACAGAGTGTGACGAAGATCCAGTCTCTCTACATGAAGACCAGACTGATTGCTCCAGTCTCAGAGATGAAAACAATAAAGAGAACTACC
CCGACGCAGGGGCTCTGGTAGAAGAGCACGCGCCGCCCTCTTGGGAGCCGCAGCAGCAGAATGTAGAGGCGACCGTGCTGGTGGACAGCG
TATTGCGACCCAGCATGGGCAACTTCAAGTCCAGGAAGCCCAAGTCCATCTTCAAAGCGGAGAGCGGGAGGAGCCACGGAGAAAGTCAGA
GTGGAAAAGACAAGGATGCCGTGGATAAATTGCTCAAGGACCTGGATGCCAATGGAGATGCCCAGGTGGACTTCAGTGAGTTCATAGTGT
TCGTGGCTGCAATCACGTCTGCCTGTCACAAGTACTTTGAGAAGGCAGGACTCAAATGATGCCCTGGAGATGTCACAGATTCCTGGCAGA
GCCATGGTCCCAGGCTTCCCAAAAGTGTTTGTTGGCAATTATTCCCCTAGGCTGAGCCTGCTCATGTACCTCTGATTAATAAATGCTTAT

>28561_28561_2_FAM13C-S100P_FAM13C_chr10_61112030_ENST00000468840_S100P_chr4_6698620_ENST00000296370_length(amino acids)=198AA_BP=149
MDPGVPAPPPRPAQLCPRSLAGCRALWFARAAGPLLGVSLRACADSSPSLQDNSFSSTTVTECDEDPVSLHEDQTDCSSLRDENNKENYP
DAGALVEEHAPPSWEPQQQNVEATVLVDSVLRPSMGNFKSRKPKSIFKAESGRSHGESQSGKDKDAVDKLLKDLDANGDAQVDFSEFIVF

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

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Fusion Gene PPI Analysis for FAM13C-S100P


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


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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 FAM13C-S100P


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 FAM13C-S100P


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource