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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: 32924

FusionGeneSummary for SDC1_PUM2

check button Fusion gene summary
Fusion gene informationFusion gene name: SDC1_PUM2
Fusion gene ID: 32924
HgeneTgene
Gene symbol

SDC1

PUM2

Gene ID

6382

23369

Gene namesyndecan 1pumilio RNA binding family member 2
SynonymsCD138|SDC|SYND1|syndecanPUMH2|PUML2
Cytomap

2p24.1

2p24.1

Type of geneprotein-codingprotein-coding
Descriptionsyndecan-1CD138 antigenheparan sulfate proteoglycan fibroblast growth factor receptorsyndecan proteoglycan 1pumilio homolog 2pumilio-2
Modification date2018052720180522
UniProtAcc

P18827

Q8TB72

Ensembl transtripts involved in fusion geneENST00000254351, ENST00000381150, 
ENST00000403076, ENST00000482879, 
ENST00000338086, ENST00000319801, 
ENST00000361078, ENST00000536417, 
ENST00000403432, ENST00000420234, 
Fusion gene scores* DoF score4 X 4 X 3=488 X 7 X 5=280
# samples 410
** MAII scorelog2(4/48*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(10/280*10)=-1.48542682717024
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: SDC1 [Title/Abstract] AND PUM2 [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
TgenePUM2

GO:0010608

posttranscriptional regulation of gene expression

25100735

TgenePUM2

GO:0043488

regulation of mRNA stability

26724866

TgenePUM2

GO:0051983

regulation of chromosome segregation

26724866

TgenePUM2

GO:1900246

positive regulation of RIG-I signaling pathway

25340845


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-HF-A5NB-01ASDC1chr2

20402848

-PUM2chr2

20463221

-
* 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-frameENST00000254351ENST00000338086SDC1chr2

20402848

-PUM2chr2

20463221

-
In-frameENST00000254351ENST00000319801SDC1chr2

20402848

-PUM2chr2

20463221

-
In-frameENST00000254351ENST00000361078SDC1chr2

20402848

-PUM2chr2

20463221

-
In-frameENST00000254351ENST00000536417SDC1chr2

20402848

-PUM2chr2

20463221

-
In-frameENST00000254351ENST00000403432SDC1chr2

20402848

-PUM2chr2

20463221

-
5CDS-intronENST00000254351ENST00000420234SDC1chr2

20402848

-PUM2chr2

20463221

-
Frame-shiftENST00000381150ENST00000338086SDC1chr2

20402848

-PUM2chr2

20463221

-
Frame-shiftENST00000381150ENST00000319801SDC1chr2

20402848

-PUM2chr2

20463221

-
Frame-shiftENST00000381150ENST00000361078SDC1chr2

20402848

-PUM2chr2

20463221

-
Frame-shiftENST00000381150ENST00000536417SDC1chr2

20402848

-PUM2chr2

20463221

-
Frame-shiftENST00000381150ENST00000403432SDC1chr2

20402848

-PUM2chr2

20463221

-
5CDS-intronENST00000381150ENST00000420234SDC1chr2

20402848

-PUM2chr2

20463221

-
intron-3CDSENST00000403076ENST00000338086SDC1chr2

20402848

-PUM2chr2

20463221

-
intron-3CDSENST00000403076ENST00000319801SDC1chr2

20402848

-PUM2chr2

20463221

-
intron-3CDSENST00000403076ENST00000361078SDC1chr2

20402848

-PUM2chr2

20463221

-
intron-3CDSENST00000403076ENST00000536417SDC1chr2

20402848

-PUM2chr2

20463221

-
intron-3CDSENST00000403076ENST00000403432SDC1chr2

20402848

-PUM2chr2

20463221

-
intron-intronENST00000403076ENST00000420234SDC1chr2

20402848

-PUM2chr2

20463221

-
intron-3CDSENST00000482879ENST00000338086SDC1chr2

20402848

-PUM2chr2

20463221

-
intron-3CDSENST00000482879ENST00000319801SDC1chr2

20402848

-PUM2chr2

20463221

-
intron-3CDSENST00000482879ENST00000361078SDC1chr2

20402848

-PUM2chr2

20463221

-
intron-3CDSENST00000482879ENST00000536417SDC1chr2

20402848

-PUM2chr2

20463221

-
intron-3CDSENST00000482879ENST00000403432SDC1chr2

20402848

-PUM2chr2

20463221

-
intron-intronENST00000482879ENST00000420234SDC1chr2

20402848

-PUM2chr2

20463221

-

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FusionProtFeatures for SDC1_PUM2


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
SDC1

P18827

PUM2

Q8TB72

Cell surface proteoglycan that bears both heparansulfate and chondroitin sulfate and that links the cytoskeleton tothe interstitial matrix. Regulates exosome biogenesis in concertwith SDCBP and PDCD6IP (PubMed:22660413).{ECO:0000269|PubMed:22660413}. Sequence-specific RNA-binding protein that acts as apost-transcriptional repressor by binding the 3'-UTR of mRNAtargets. Binds to an RNA consensus sequence, the Pumilio ResponseElement (PRE), 5'-UGUANAUA-3', that is related to the NanosResponse Element (NRE) (, PubMed:21397187). Mediates post-transcriptional repression of transcripts via differentmechanisms: acts via direct recruitment of the CCR4-POP2-NOTdeadenylase leading to translational inhibition and mRNAdegradation (PubMed:22955276). Also mediates deadenylation-independent repression by promoting accessibility of miRNAs(PubMed:18776931, PubMed:22345517). Acts as a post-transcriptionalrepressor of E2F3 mRNAs by binding to its 3'-UTR and facilitatingmiRNA regulation (PubMed:22345517). Plays a role in cytoplasmicsensing of viral infection (PubMed:25340845). Represses a programof genes necessary to maintain genomic stability such as keymitotic, DNA repair and DNA replication factors. Its ability torepress those target mRNAs is regulated by the lncRNA NORAD (non-coding RNA activated by DNA damage) which, due to its highabundance and multitude of PUMILIO binding sites, is able tosequester a significant fraction of PUM1 and PUM2 in the cytoplasm(PubMed:26724866). May regulate DCUN1D3 mRNA levels(PubMed:25349211). May support proliferation and self-renewal ofstem cells. Binds specifically to miRNA MIR199A precursor, withPUM1, regulates miRNA MIR199A expression at a postranscriptionallevel (PubMed:28431233). {ECO:0000269|PubMed:18776931,ECO:0000269|PubMed:21397187, ECO:0000269|PubMed:22345517,ECO:0000269|PubMed:22955276, ECO:0000269|PubMed:25340845,ECO:0000269|PubMed:25349211, ECO:0000269|PubMed:26724866,ECO:0000269|PubMed:28431233}.

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
HgeneSDC1chr2:20402848chr2:20463221ENST00000254351-4523_254254311Topological domainExtracellular
HgeneSDC1chr2:20402848chr2:20463221ENST00000381150-5623_254254311Topological domainExtracellular
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-1019706_1048573988DomainPUM-HD
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-1120706_10486521065DomainPUM-HD
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-1120706_10486521067DomainPUM-HD
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-1221706_10486521065DomainPUM-HD
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-10191002_1006573988RegionUracil-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-1019741_745573988RegionAdenine-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-1019777_781573988RegionUracil-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-1019813_817573988RegionAdenine-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-1019851_855573988RegionNon-specific-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-1019887_891573988RegionAdenine-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-1019923_927573988RegionUracil-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-1019959_963573988RegionGuanine-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-11201002_10066521065RegionUracil-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-1120741_7456521065RegionAdenine-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-1120777_7816521065RegionUracil-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-1120813_8176521065RegionAdenine-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-1120851_8556521065RegionNon-specific-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-1120887_8916521065RegionAdenine-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-1120923_9276521065RegionUracil-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-1120959_9636521065RegionGuanine-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-11201002_10066521067RegionUracil-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-1120741_7456521067RegionAdenine-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-1120777_7816521067RegionUracil-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-1120813_8176521067RegionAdenine-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-1120851_8556521067RegionNon-specific-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-1120887_8916521067RegionAdenine-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-1120923_9276521067RegionUracil-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-1120959_9636521067RegionGuanine-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-12211002_10066521065RegionUracil-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-1221741_7456521065RegionAdenine-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-1221777_7816521065RegionUracil-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-1221813_8176521065RegionAdenine-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-1221851_8556521065RegionNon-specific-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-1221887_8916521065RegionAdenine-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-1221923_9276521065RegionUracil-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-1221959_9636521065RegionGuanine-nucleotide binding in RNA target
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-1019726_761573988RepeatPumilio 1
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-1019762_797573988RepeatPumilio 2
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-1019798_835573988RepeatPumilio 3
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-1019836_871573988RepeatPumilio 4
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-1019872_907573988RepeatPumilio 5
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-1019908_943573988RepeatPumilio 6
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-1019944_979573988RepeatPumilio 7
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-1019983_1022573988RepeatPumilio 8
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-1120726_7616521065RepeatPumilio 1
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-1120762_7976521065RepeatPumilio 2
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-1120798_8356521065RepeatPumilio 3
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-1120836_8716521065RepeatPumilio 4
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-1120872_9076521065RepeatPumilio 5
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-1120908_9436521065RepeatPumilio 6
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-1120944_9796521065RepeatPumilio 7
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-1120983_10226521065RepeatPumilio 8
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-1120726_7616521067RepeatPumilio 1
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-1120762_7976521067RepeatPumilio 2
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-1120798_8356521067RepeatPumilio 3
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-1120836_8716521067RepeatPumilio 4
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-1120872_9076521067RepeatPumilio 5
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-1120908_9436521067RepeatPumilio 6
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-1120944_9796521067RepeatPumilio 7
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-1120983_10226521067RepeatPumilio 8
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-1221726_7616521065RepeatPumilio 1
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-1221762_7976521065RepeatPumilio 2
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-1221798_8356521065RepeatPumilio 3
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-1221836_8716521065RepeatPumilio 4
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-1221872_9076521065RepeatPumilio 5
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-1221908_9436521065RepeatPumilio 6
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-1221944_9796521065RepeatPumilio 7
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-1221983_10226521065RepeatPumilio 8

- In-frame and not-retained protein feature among the 13 regional features.
>>>>
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneSDC1chr2:20402848chr2:20463221ENST00000254351-45276_310254311Topological domainCytoplasmic
HgeneSDC1chr2:20402848chr2:20463221ENST00000381150-56276_310254311Topological domainCytoplasmic
HgeneSDC1chr2:20402848chr2:20463221ENST00000254351-45255_275254311TransmembraneHelical
HgeneSDC1chr2:20402848chr2:20463221ENST00000381150-56255_275254311TransmembraneHelical
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-1019278_488573988Compositional biasNote=Ala-rich
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-1019359_405573988Compositional biasNote=Gln-rich
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-1019520_687573988Compositional biasNote=Ser-rich
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-1120278_4886521065Compositional biasNote=Ala-rich
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-1120359_4056521065Compositional biasNote=Gln-rich
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-1120520_6876521065Compositional biasNote=Ser-rich
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-1120278_4886521067Compositional biasNote=Ala-rich
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-1120359_4056521067Compositional biasNote=Gln-rich
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-1120520_6876521067Compositional biasNote=Ser-rich
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-1221278_4886521065Compositional biasNote=Ala-rich
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-1221359_4056521065Compositional biasNote=Gln-rich
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-1221520_6876521065Compositional biasNote=Ser-rich


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FusionGeneSequence for SDC1_PUM2


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 SDC1_PUM2


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
SDC1LACRT, FGF2, CCL5, CXCL8, HGF, CASK, SDCBP, CTSG, APP, AHCY, ZNF593, BAG3, CD63, PTEN, EP300, FARP1, DHRS2, GMEB2, PRDM10, CYHR1, EPHA2, CSNK1G3, OCLN, HMGCS1, CCNY, EFR3A, PTPRG, ARVCF, AMPD2, RAP2A, RFTN1, PARP2, EEPD1, GNAZ, VANGL1, RRAS, GNB4, GMEB1, FBXO46, FTO, CSNK1G2, AHNAK, PRRC1, CTH, HRAS, NCAM1PUM2PUM2, NANOS1, AURKA, MED4, ELAVL1, DAZ1, DAZL, NANOS3, BMI1, RBFOX2, ILF2, NTRK1, SAMD1, RBM45, CLASRP, ELAVL2, CELF5, STRBP, CDX1, LITAF, TRIM25, G3BP1


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
TgenePUM2chr2:20402848chr2:20463221ENST00000319801-10191_260573988SNAPIN
TgenePUM2chr2:20402848chr2:20463221ENST00000338086-11201_2606521065SNAPIN
TgenePUM2chr2:20402848chr2:20463221ENST00000361078-11201_2606521067SNAPIN
TgenePUM2chr2:20402848chr2:20463221ENST00000403432-12211_2606521065SNAPIN


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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RelatedDrugs for SDC1_PUM2


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 SDC1_PUM2


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneSDC1C0345967Malignant mesothelioma1CTD_human