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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: 33778

FusionGeneSummary for SHFM1_TMEM55A

check button Fusion gene summary
Fusion gene informationFusion gene name: SHFM1_TMEM55A
Fusion gene ID: 33778
HgeneTgene
Gene symbol

SHFM1

TMEM55A

Gene ID

7979

Gene nameSEM1, 26S proteasome complex subunit
SynonymsC7orf76|DSS1|ECD|SHFD1|SHFM1|SHSF1|Shfdg1
Cytomap

7q21.3

Type of geneprotein-coding
Description26S proteasome complex subunit SEM126S proteasome complex subunit DSS1deleted in split hand/split foot protein 1deleted in split-hand/split-foot 1split hand/foot deleted protein 1split hand/foot malformation (ectrodactyly) type 1split hand/foot malf
Modification date20180523
UniProtAcc

Ensembl transtripts involved in fusion geneENST00000417009, ENST00000444799, 
ENST00000413065, ENST00000248566, 
ENST00000493858, 
ENST00000285419, 
Fusion gene scores* DoF score3 X 3 X 1=91 X 1 X 1=1
# samples 51
** MAII scorelog2(5/9*10)=2.47393118833241
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(1/1*10)=3.32192809488736
Context

PubMed: SHFM1 [Title/Abstract] AND TMEM55A [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotation
* 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
ChiTaRS3.1BF904112SHFM1chr7

96331448

+TMEM55Achr8

92046922

-
* 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
intron-intronENST00000417009ENST00000285419SHFM1chr7

96331448

+TMEM55Achr8

92046922

-
intron-intronENST00000444799ENST00000285419SHFM1chr7

96331448

+TMEM55Achr8

92046922

-
intron-intronENST00000413065ENST00000285419SHFM1chr7

96331448

+TMEM55Achr8

92046922

-
intron-intronENST00000248566ENST00000285419SHFM1chr7

96331448

+TMEM55Achr8

92046922

-
intron-intronENST00000493858ENST00000285419SHFM1chr7

96331448

+TMEM55Achr8

92046922

-

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FusionProtFeatures for SHFM1_TMEM55A


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
SHFM1

TMEM55A

Lectin that binds to various sugars: galactose > mannose= fucose > N-acetylglucosamine > N-acetylgalactosamine(PubMed:10224141). Acts as a chemoattractant, probably involved inthe regulation of cell migration (PubMed:28301481).{ECO:0000269|PubMed:10224141, ECO:0000269|PubMed:28301481}. Lectin that binds to various sugars: galactose > mannose= fucose > N-acetylglucosamine > N-acetylgalactosamine(PubMed:10224141). Acts as a chemoattractant, probably involved inthe regulation of cell migration (PubMed:28301481).{ECO:0000269|PubMed:10224141, ECO:0000269|PubMed:28301481}.

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


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FusionGeneSequence for SHFM1_TMEM55A


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 SHFM1_TMEM55A


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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RelatedDrugs for SHFM1_TMEM55A


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 SHFM1_TMEM55A


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