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Center for Computational Systems Medicine level1
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Fusion Gene Summary

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Fusion Gene Sample Information

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Fusion ORF Analysis

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Fusion Amino Acid Sequences

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Fusion Protein Functional Features

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Fusion Protein-Protein Interaction

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Related drugs with this fusion protein

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Related disease with this fusion protein

Fusion Protein:RBM10-CMAS

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: RBM10-CMAS
FusionPDB ID: 72741
FusionGDB2.0 ID: 72741
HgeneTgene
Gene symbol

RBM10

CMAS

Gene ID

8241

55907

Gene nameRNA binding motif protein 10cytidine monophosphate N-acetylneuraminic acid synthetase
SynonymsDXS8237E|GPATC9|GPATCH9|S1-1|TARPS|ZRANB5CSS
Cytomap

Xp11.3

12p12.1

Type of geneprotein-codingprotein-coding
DescriptionRNA-binding protein 10RNA-binding protein S1-1epididymis secretory sperm binding proteing patch domain-containing protein 9N-acylneuraminate cytidylyltransferaseCMP-N-acetylneuraminic acid synthaseCMP-N-acetylneuraminic acid synthetaseCMP-Neu5Ac synthetaseCMP-NeuNAc synthaseCMP-NeuNAc synthetaseCMP-sialic acid synthetasecytidine 5'-monophosphate N-acetylneuraminic acid
Modification date2020031320200313
UniProtAcc.

Q8NFW8

Ensembl transtripts involved in fusion geneENST idsENST00000329236, ENST00000345781, 
ENST00000377604, ENST00000478410, 
ENST00000229329, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score17 X 8 X 9=12246 X 4 X 4=96
# samples 186
** MAII scorelog2(18/1224*10)=-2.76553474636298
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(6/96*10)=-0.678071905112638
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)

PubMed: RBM10 [Title/Abstract] AND CMAS [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)RBM10(47006897)-CMAS(22208083), # samples:3
Anticipated loss of major functional domain due to fusion event.RBM10-CMAS seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
RBM10-CMAS seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
RBM10-CMAS seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
RBM10-CMAS seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
* 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 RBM10 (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 CMAS (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


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Fusion Gene Sample Information

check buttonFusion gene information from FusionGDB2.0.
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
ChimerDB4LUADTCGA-86-7954-01ARBM10chrX

47006897

-CMASchr12

22208083

+
ChimerDB4LUADTCGA-86-7954-01ARBM10chrX

47006897

+CMASchr12

22208083

+


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Fusion ORF Analysis


check buttonFusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)
ENST00000377604RBM10chrX47006897+ENST00000229329CMASchr1222208083+21567594241803459
ENST00000329236RBM10chrX47006897+ENST00000229329CMASchr1222208083+1793396611440459
ENST00000345781RBM10chrX47006897+ENST00000229329CMASchr1222208083+1746349141393459

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
ENST00000377604ENST00000229329RBM10chrX47006897+CMASchr1222208083+0.0003714170.99962854
ENST00000329236ENST00000229329RBM10chrX47006897+CMASchr1222208083+0.0002648380.9997352
ENST00000345781ENST00000229329RBM10chrX47006897+CMASchr1222208083+0.0002532080.99974674

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Fusion Amino Acid Sequences


check button For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among the all predicted ones.
>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

>72741_72741_1_RBM10-CMAS_RBM10_chrX_47006897_ENST00000329236_CMAS_chr12_22208083_ENST00000229329_length(amino acids)=459AA_BP=112
MGVGGSEFPWEGSALGASPLPPICLQSRTWLLRAPAPAELGELEEVAAGRGDVWEPFLDSPGREESLQEASPRLADHGSSSGGGWEVKRS
QRLRRGPSSPRRPYQDMEYERRVWVSTDHDEIENVAKQFGAQVHRRSSEVSKDSSTSLDAIIEFLNYHNEVDIVGNIQATSPCLHPTDLQ
KVAEMIREEGYDSVFSVVRRHQFRWSEIQKGVREVTEPLNLNPAKRPRRQDWDGELYENGSFYFAKRHLIEMGYLQGGKMAYYEMRAEHS
VDIDVDIDWPIAEQRVLRYGYFGKEKLKEIKLLVCNIDGCLTNGHIYVSGDQKEIISYDVKDAIGISLLKKSGIEVRLISERACSKQTLS
SLKLDCKMEVSVSDKLAVVDEWRKEMGLCWKEVAYLGNEVSDEECLKRVGLSGAPADACSTAQKAVGYICKCNGGRGAIREFAEHICLLM

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

>72741_72741_2_RBM10-CMAS_RBM10_chrX_47006897_ENST00000345781_CMAS_chr12_22208083_ENST00000229329_length(amino acids)=459AA_BP=112
MGVGGSEFPWEGSALGASPLPPICLQSRTWLLRAPAPAELGELEEVAAGRGDVWEPFLDSPGREESLQEASPRLADHGSSSGGGWEVKRS
QRLRRGPSSPRRPYQDMEYERRVWVSTDHDEIENVAKQFGAQVHRRSSEVSKDSSTSLDAIIEFLNYHNEVDIVGNIQATSPCLHPTDLQ
KVAEMIREEGYDSVFSVVRRHQFRWSEIQKGVREVTEPLNLNPAKRPRRQDWDGELYENGSFYFAKRHLIEMGYLQGGKMAYYEMRAEHS
VDIDVDIDWPIAEQRVLRYGYFGKEKLKEIKLLVCNIDGCLTNGHIYVSGDQKEIISYDVKDAIGISLLKKSGIEVRLISERACSKQTLS
SLKLDCKMEVSVSDKLAVVDEWRKEMGLCWKEVAYLGNEVSDEECLKRVGLSGAPADACSTAQKAVGYICKCNGGRGAIREFAEHICLLM

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

>72741_72741_3_RBM10-CMAS_RBM10_chrX_47006897_ENST00000377604_CMAS_chr12_22208083_ENST00000229329_length(amino acids)=459AA_BP=112
MGVGGSEFPWEGSALGASPLPPICLQSRTWLLRAPAPAELGELEEVAAGRGDVWEPFLDSPGREESLQEASPRLADHGSSSGGGWEVKRS
QRLRRGPSSPRRPYQDMEYERRVWVSTDHDEIENVAKQFGAQVHRRSSEVSKDSSTSLDAIIEFLNYHNEVDIVGNIQATSPCLHPTDLQ
KVAEMIREEGYDSVFSVVRRHQFRWSEIQKGVREVTEPLNLNPAKRPRRQDWDGELYENGSFYFAKRHLIEMGYLQGGKMAYYEMRAEHS
VDIDVDIDWPIAEQRVLRYGYFGKEKLKEIKLLVCNIDGCLTNGHIYVSGDQKEIISYDVKDAIGISLLKKSGIEVRLISERACSKQTLS
SLKLDCKMEVSVSDKLAVVDEWRKEMGLCWKEVAYLGNEVSDEECLKRVGLSGAPADACSTAQKAVGYICKCNGGRGAIREFAEHICLLM

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

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Fusion Protein Functional Features


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/chrX:47006897/chr12:22208083)
- 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
.CMAS

Q8NFW8

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: Catalyzes the activation of N-acetylneuraminic acid (NeuNAc) to cytidine 5'-monophosphate N-acetylneuraminic acid (CMP-NeuNAc), a substrate required for the addition of sialic acid. Has some activity toward NeuNAc, N-glycolylneuraminic acid (Neu5Gc) or 2-keto-3-deoxy-D-glycero-D-galacto-nononic acid (KDN).

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.
- Retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
TgeneCMASchrX:47006897chr12:22208083ENST0000022932908200_20686.66666666666667435.0MotifNote=BC2 motif
TgeneCMASchrX:47006897chr12:22208083ENST0000022932908269_27686.66666666666667435.0MotifNote=BC3 motif

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneRBM10chrX:47006897chr12:22208083ENST00000329236+223113_1255.666666666666667853.0Compositional biasNote=Poly-Glu
HgeneRBM10chrX:47006897chr12:22208083ENST00000329236+223561_6075.666666666666667853.0Compositional biasNote=Tyr-rich
HgeneRBM10chrX:47006897chr12:22208083ENST00000329236+22380_875.666666666666667853.0Compositional biasNote=Poly-Arg
HgeneRBM10chrX:47006897chr12:22208083ENST00000345781+223113_1255.666666666666667854.0Compositional biasNote=Poly-Glu
HgeneRBM10chrX:47006897chr12:22208083ENST00000345781+223561_6075.666666666666667854.0Compositional biasNote=Tyr-rich
HgeneRBM10chrX:47006897chr12:22208083ENST00000345781+22380_875.666666666666667854.0Compositional biasNote=Poly-Arg
HgeneRBM10chrX:47006897chr12:22208083ENST00000377604+224113_1255.666666666666667931.0Compositional biasNote=Poly-Glu
HgeneRBM10chrX:47006897chr12:22208083ENST00000377604+224561_6075.666666666666667931.0Compositional biasNote=Tyr-rich
HgeneRBM10chrX:47006897chr12:22208083ENST00000377604+22480_875.666666666666667931.0Compositional biasNote=Poly-Arg
HgeneRBM10chrX:47006897chr12:22208083ENST00000329236+223129_2095.666666666666667853.0DomainRRM 1
HgeneRBM10chrX:47006897chr12:22208083ENST00000329236+223300_3845.666666666666667853.0DomainRRM 2
HgeneRBM10chrX:47006897chr12:22208083ENST00000329236+223858_9045.666666666666667853.0DomainG-patch
HgeneRBM10chrX:47006897chr12:22208083ENST00000345781+223129_2095.666666666666667854.0DomainRRM 1
HgeneRBM10chrX:47006897chr12:22208083ENST00000345781+223300_3845.666666666666667854.0DomainRRM 2
HgeneRBM10chrX:47006897chr12:22208083ENST00000345781+223858_9045.666666666666667854.0DomainG-patch
HgeneRBM10chrX:47006897chr12:22208083ENST00000377604+224129_2095.666666666666667931.0DomainRRM 1
HgeneRBM10chrX:47006897chr12:22208083ENST00000377604+224300_3845.666666666666667931.0DomainRRM 2
HgeneRBM10chrX:47006897chr12:22208083ENST00000377604+224858_9045.666666666666667931.0DomainG-patch
HgeneRBM10chrX:47006897chr12:22208083ENST00000329236+223212_2425.666666666666667853.0Zinc fingerRanBP2-type
HgeneRBM10chrX:47006897chr12:22208083ENST00000329236+223759_7845.666666666666667853.0Zinc fingerC2H2-type%3B atypical
HgeneRBM10chrX:47006897chr12:22208083ENST00000345781+223212_2425.666666666666667854.0Zinc fingerRanBP2-type
HgeneRBM10chrX:47006897chr12:22208083ENST00000345781+223759_7845.666666666666667854.0Zinc fingerC2H2-type%3B atypical
HgeneRBM10chrX:47006897chr12:22208083ENST00000377604+224212_2425.666666666666667931.0Zinc fingerRanBP2-type
HgeneRBM10chrX:47006897chr12:22208083ENST00000377604+224759_7845.666666666666667931.0Zinc fingerC2H2-type%3B atypical
TgeneCMASchrX:47006897chr12:22208083ENST000002293290815_3186.66666666666667435.0MotifNote=BC1 motif


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Fusion Protein-Protein Interaction


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 from validated records (BIOGRID-3.4.160)
GenePPI interactors


check button Protein-protein interactors based on sequence similarity (STRING)
GeneSTRING network
RBM10
CMAS


check button - Retained interactions in fusion protein (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost interactions due to fusion (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs to RBM10-CMAS


check button Drugs used for this fusion-positive patient.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDrugSourcePMID

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Related Diseases to RBM10-CMAS


check button Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDiseaseSourcePMID

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