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Center for Computational Systems Medicine
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FusionGeneSummary

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FusionProtFeature

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FusionGeneSequence

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FusionGenePPI

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RelatedDrugs

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RelatedDiseases

Fusion gene ID: 7611

FusionGeneSummary for CMTM4_CMTM3

check button Fusion gene summary
Fusion gene informationFusion gene name: CMTM4_CMTM3
Fusion gene ID: 7611
HgeneTgene
Gene symbol

CMTM4

CMTM3

Gene ID

146223

123920

Gene nameCKLF like MARVEL transmembrane domain containing 4CKLF like MARVEL transmembrane domain containing 3
SynonymsCKLFSF4BNAS2|CKLFSF3
Cytomap

16q21-q22.1

16q22.1

Type of geneprotein-codingprotein-coding
DescriptionCKLF-like MARVEL transmembrane domain-containing protein 4chemokine-like factor super family 4chemokine-like factor superfamily member 4CKLF-like MARVEL transmembrane domain-containing protein 3chemokine-like factor superfamily member 3
Modification date2018052320180523
UniProtAcc

Q8IZR5

Q96MX0

Ensembl transtripts involved in fusion geneENST00000330687, ENST00000394106, 
ENST00000563952, 
ENST00000424011, 
ENST00000360086, ENST00000562707, 
ENST00000361909, ENST00000460097, 
ENST00000565666, ENST00000567572, 
ENST00000564060, ENST00000565922, 
ENST00000565003, ENST00000568477, 
ENST00000566121, 
Fusion gene scores* DoF score7 X 4 X 5=1401 X 1 X 1=1
# samples 71
** MAII scorelog2(7/140*10)=-1
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(1/1*10)=3.32192809488736
Context

PubMed: CMTM4 [Title/Abstract] AND CMTM3 [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotationTumor suppressor gene involved fusion gene, in-frame but not retained their domain.
Tumor suppressor gene involved fusion gene, retained protein feature but frameshift.
DDR (DNA damage repair) gene involved fusion gene, in-frame but not retained their domain.
* 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 button Fusion gene information from three resources
(ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018))
* 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.
Data typeSourceCancer typeSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
TCGARVSTADTCGA-BR-8077-01ACMTM4chr16

66730243

-CMTM3chr16

66642212

+
* LD: Li Ding group's fusion gene list
  RV: Roel Verhaak group's fusion gene list
  ChiTaRs fusion database

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
In-frameENST00000330687ENST00000424011CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-intronENST00000330687ENST00000360086CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-intronENST00000330687ENST00000562707CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-intronENST00000330687ENST00000361909CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-5UTRENST00000330687ENST00000460097CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-5UTRENST00000330687ENST00000565666CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-5UTRENST00000330687ENST00000567572CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-5UTRENST00000330687ENST00000564060CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-intronENST00000330687ENST00000565922CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-5UTRENST00000330687ENST00000565003CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-5UTRENST00000330687ENST00000568477CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-5UTRENST00000330687ENST00000566121CMTM4chr16

66730243

-CMTM3chr16

66642212

+
In-frameENST00000394106ENST00000424011CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-intronENST00000394106ENST00000360086CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-intronENST00000394106ENST00000562707CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-intronENST00000394106ENST00000361909CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-5UTRENST00000394106ENST00000460097CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-5UTRENST00000394106ENST00000565666CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-5UTRENST00000394106ENST00000567572CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-5UTRENST00000394106ENST00000564060CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-intronENST00000394106ENST00000565922CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-5UTRENST00000394106ENST00000565003CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-5UTRENST00000394106ENST00000568477CMTM4chr16

66730243

-CMTM3chr16

66642212

+
5CDS-5UTRENST00000394106ENST00000566121CMTM4chr16

66730243

-CMTM3chr16

66642212

+
intron-3CDSENST00000563952ENST00000424011CMTM4chr16

66730243

-CMTM3chr16

66642212

+
intron-intronENST00000563952ENST00000360086CMTM4chr16

66730243

-CMTM3chr16

66642212

+
intron-intronENST00000563952ENST00000562707CMTM4chr16

66730243

-CMTM3chr16

66642212

+
intron-intronENST00000563952ENST00000361909CMTM4chr16

66730243

-CMTM3chr16

66642212

+
intron-5UTRENST00000563952ENST00000460097CMTM4chr16

66730243

-CMTM3chr16

66642212

+
intron-5UTRENST00000563952ENST00000565666CMTM4chr16

66730243

-CMTM3chr16

66642212

+
intron-5UTRENST00000563952ENST00000567572CMTM4chr16

66730243

-CMTM3chr16

66642212

+
intron-5UTRENST00000563952ENST00000564060CMTM4chr16

66730243

-CMTM3chr16

66642212

+
intron-intronENST00000563952ENST00000565922CMTM4chr16

66730243

-CMTM3chr16

66642212

+
intron-5UTRENST00000563952ENST00000565003CMTM4chr16

66730243

-CMTM3chr16

66642212

+
intron-5UTRENST00000563952ENST00000568477CMTM4chr16

66730243

-CMTM3chr16

66642212

+
intron-5UTRENST00000563952ENST00000566121CMTM4chr16

66730243

-CMTM3chr16

66642212

+

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FusionProtFeatures for CMTM4_CMTM3


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
CMTM4

Q8IZR5

CMTM3

Q96MX0

Acts as a backup for CMTM6 to regulate plasma membraneexpression of PD-L1/CD274, an immune inhibitory ligand criticalfor immune tolerance to self and antitumor immunity. May protectPD-L1/CD274 from being polyubiquitinated and targeted fordegradation. {ECO:0000269|PubMed:28813410}.

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
TgeneCMTM3chr16:66730243chr16:66642212ENST00000360086+0336_155-14260DomainMARVEL
TgeneCMTM3chr16:66730243chr16:66642212ENST00000565922+0236_155-2560DomainMARVEL
TgeneCMTM3chr16:66730243chr16:66642212ENST00000360086+03101_121-14260TransmembraneHelical
TgeneCMTM3chr16:66730243chr16:66642212ENST00000360086+03131_151-14260TransmembraneHelical
TgeneCMTM3chr16:66730243chr16:66642212ENST00000360086+0364_84-14260TransmembraneHelical
TgeneCMTM3chr16:66730243chr16:66642212ENST00000361909+16101_12149183TransmembraneHelical
TgeneCMTM3chr16:66730243chr16:66642212ENST00000361909+16131_15149183TransmembraneHelical
TgeneCMTM3chr16:66730243chr16:66642212ENST00000361909+1664_8449183TransmembraneHelical
TgeneCMTM3chr16:66730243chr16:66642212ENST00000424011+16101_12149183TransmembraneHelical
TgeneCMTM3chr16:66730243chr16:66642212ENST00000424011+16131_15149183TransmembraneHelical
TgeneCMTM3chr16:66730243chr16:66642212ENST00000424011+1664_8449183TransmembraneHelical
TgeneCMTM3chr16:66730243chr16:66642212ENST00000562707+16101_12149183TransmembraneHelical
TgeneCMTM3chr16:66730243chr16:66642212ENST00000562707+16131_15149183TransmembraneHelical
TgeneCMTM3chr16:66730243chr16:66642212ENST00000562707+1664_8449183TransmembraneHelical
TgeneCMTM3chr16:66730243chr16:66642212ENST00000565922+02101_121-2560TransmembraneHelical
TgeneCMTM3chr16:66730243chr16:66642212ENST00000565922+02131_151-2560TransmembraneHelical
TgeneCMTM3chr16:66730243chr16:66642212ENST00000565922+0264_84-2560TransmembraneHelical
TgeneCMTM3chr16:66730243chr16:66642212ENST00000567572+05101_12149183TransmembraneHelical
TgeneCMTM3chr16:66730243chr16:66642212ENST00000567572+05131_15149183TransmembraneHelical
TgeneCMTM3chr16:66730243chr16:66642212ENST00000567572+0564_8449183TransmembraneHelical

- In-frame and not-retained protein feature among the 13 regional features.
>>>>>>>>>>>>>>>
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneCMTM4chr16:66730243chr16:66642212ENST00000330687-1549_17662235DomainMARVEL
HgeneCMTM4chr16:66730243chr16:66642212ENST00000394106-1449_17662209DomainMARVEL
HgeneCMTM4chr16:66730243chr16:66642212ENST00000563952-1449_176-61180DomainMARVEL
HgeneCMTM4chr16:66730243chr16:66642212ENST00000330687-15123_14362235TransmembraneHelical
HgeneCMTM4chr16:66730243chr16:66642212ENST00000330687-15151_17162235TransmembraneHelical
HgeneCMTM4chr16:66730243chr16:66642212ENST00000330687-1559_7962235TransmembraneHelical
HgeneCMTM4chr16:66730243chr16:66642212ENST00000330687-1585_10562235TransmembraneHelical
HgeneCMTM4chr16:66730243chr16:66642212ENST00000394106-14123_14362209TransmembraneHelical
HgeneCMTM4chr16:66730243chr16:66642212ENST00000394106-14151_17162209TransmembraneHelical
HgeneCMTM4chr16:66730243chr16:66642212ENST00000394106-1459_7962209TransmembraneHelical
HgeneCMTM4chr16:66730243chr16:66642212ENST00000394106-1485_10562209TransmembraneHelical
HgeneCMTM4chr16:66730243chr16:66642212ENST00000563952-14123_143-61180TransmembraneHelical
HgeneCMTM4chr16:66730243chr16:66642212ENST00000563952-14151_171-61180TransmembraneHelical
HgeneCMTM4chr16:66730243chr16:66642212ENST00000563952-1459_79-61180TransmembraneHelical
HgeneCMTM4chr16:66730243chr16:66642212ENST00000563952-1485_105-61180TransmembraneHelical
TgeneCMTM3chr16:66730243chr16:66642212ENST00000361909+1636_15549183DomainMARVEL
TgeneCMTM3chr16:66730243chr16:66642212ENST00000424011+1636_15549183DomainMARVEL
TgeneCMTM3chr16:66730243chr16:66642212ENST00000562707+1636_15549183DomainMARVEL
TgeneCMTM3chr16:66730243chr16:66642212ENST00000567572+0536_15549183DomainMARVEL


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FusionGeneSequence for CMTM4_CMTM3


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences.
(nt: nucleotides, aa: amino acids)

* Fusion amino acid sequences.

* Fusion transcript sequences (only coding sequence (CDS) region).

* Fusion transcript sequences (Full-length transcript).

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FusionGenePPI for CMTM4_CMTM3


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
CMTM4MRPL2, APPL1, TMEM171, PTGER3, MANSC1, LPAR1, VIPR2, SLC7A1, SPPL2B, MPPE1, TRIM25CMTM3RABAC1, MEST, SPP1, APP, MOB1A, MOB3C, LMNA


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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RelatedDrugs for CMTM4_CMTM3


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for CMTM4_CMTM3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneCMTM3C0023893Liver Cirrhosis, Experimental1CTD_human