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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: 7147

FusionGeneSummary for CHP1_SMAD3

check button Fusion gene summary
Fusion gene informationFusion gene name: CHP1_SMAD3
Fusion gene ID: 7147
HgeneTgene
Gene symbol

CHP1

SMAD3

Gene ID

26973

4088

Gene namecysteine and histidine rich domain containing 1SMAD family member 3
SynonymsCHP1HSPC193|HsT17436|JV15-2|LDS1C|LDS3|MADH3
Cytomap

11q14.3

15q22.33

Type of geneprotein-codingprotein-coding
Descriptioncysteine and histidine-rich domain-containing protein 1CHORD-containing protein 1CHP-1chord domain-containing protein 1cysteine and histidine-rich domain (CHORD) containing 1cysteine and histidine-rich domain (CHORD)-containing, zinc-binding protein mothers against decapentaplegic homolog 3MAD homolog 3MAD, mothers against decapentaplegic homolog 3SMA- and MAD-related protein 3SMAD, mothers against DPP homolog 3hMAD-3hSMAD3mad homolog JV15-2mad protein homologmad3mothers against DPP homolog
Modification date2018051920180522
UniProtAcc

Q99653

P84022

Ensembl transtripts involved in fusion geneENST00000558351, ENST00000334660, 
ENST00000560397, 
ENST00000327367, 
ENST00000559092, ENST00000540846, 
ENST00000439724, ENST00000537194, 
Fusion gene scores* DoF score6 X 7 X 4=1684 X 6 X 3=72
# samples 77
** MAII scorelog2(7/168*10)=-1.26303440583379
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(7/72*10)=-0.0406419844973459
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CHP1 [Title/Abstract] AND SMAD3 [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
TgeneSMAD3

GO:0000122

negative regulation of transcription by RNA polymerase II

8774881

TgeneSMAD3

GO:0006357

regulation of transcription by RNA polymerase II

21947082

TgeneSMAD3

GO:0007179

transforming growth factor beta receptor signaling pathway

9732876|18548003|21947082

TgeneSMAD3

GO:0007183

SMAD protein complex assembly

9111321|10823886

TgeneSMAD3

GO:0010628

positive regulation of gene expression

21307346

TgeneSMAD3

GO:0010718

positive regulation of epithelial to mesenchymal transition

21307346

TgeneSMAD3

GO:0019049

evasion or tolerance of host defenses by virus

15334054

TgeneSMAD3

GO:0030308

negative regulation of cell growth

8774881

TgeneSMAD3

GO:0045429

positive regulation of nitric oxide biosynthetic process

27038547

TgeneSMAD3

GO:0045599

negative regulation of fat cell differentiation

19816956

TgeneSMAD3

GO:0045893

positive regulation of transcription, DNA-templated

9111321|9311995|9732876

TgeneSMAD3

GO:0045944

positive regulation of transcription by RNA polymerase II

8774881|18832382

TgeneSMAD3

GO:0051481

negative regulation of cytosolic calcium ion concentration

27038547

TgeneSMAD3

GO:0071560

cellular response to transforming growth factor beta stimulus

12902338

TgeneSMAD3

GO:1901203

positive regulation of extracellular matrix assembly

21307346


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
TCGALDOVTCGA-29-1702-01ACHP1chr15

41555081

+SMAD3chr15

67482751

+
* 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
3UTR-3CDSENST00000558351ENST00000327367CHP1chr15

41555081

+SMAD3chr15

67482751

+
3UTR-intronENST00000558351ENST00000559092CHP1chr15

41555081

+SMAD3chr15

67482751

+
3UTR-intronENST00000558351ENST00000540846CHP1chr15

41555081

+SMAD3chr15

67482751

+
3UTR-intronENST00000558351ENST00000439724CHP1chr15

41555081

+SMAD3chr15

67482751

+
3UTR-intronENST00000558351ENST00000537194CHP1chr15

41555081

+SMAD3chr15

67482751

+
Frame-shiftENST00000334660ENST00000327367CHP1chr15

41555081

+SMAD3chr15

67482751

+
5CDS-intronENST00000334660ENST00000559092CHP1chr15

41555081

+SMAD3chr15

67482751

+
5CDS-intronENST00000334660ENST00000540846CHP1chr15

41555081

+SMAD3chr15

67482751

+
5CDS-intronENST00000334660ENST00000439724CHP1chr15

41555081

+SMAD3chr15

67482751

+
5CDS-intronENST00000334660ENST00000537194CHP1chr15

41555081

+SMAD3chr15

67482751

+
Frame-shiftENST00000560397ENST00000327367CHP1chr15

41555081

+SMAD3chr15

67482751

+
5CDS-intronENST00000560397ENST00000559092CHP1chr15

41555081

+SMAD3chr15

67482751

+
5CDS-intronENST00000560397ENST00000540846CHP1chr15

41555081

+SMAD3chr15

67482751

+
5CDS-intronENST00000560397ENST00000439724CHP1chr15

41555081

+SMAD3chr15

67482751

+
5CDS-intronENST00000560397ENST00000537194CHP1chr15

41555081

+SMAD3chr15

67482751

+

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FusionProtFeatures for CHP1_SMAD3


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
CHP1

Q99653

SMAD3

P84022

Calcium-binding protein involved in different processessuch as regulation of vesicular trafficking, plasma membraneNa(+)/H(+) exchanger and gene transcription. Involved in theconstitutive exocytic membrane traffic. Mediates the associationbetween microtubules and membrane-bound organelles of theendoplasmic reticulum and Golgi apparatus and is also required forthe targeting and fusion of transcytotic vesicles (TCV) with theplasma membrane. Functions as an integral cofactor in cell pHregulation by controlling plasma membrane-type Na(+)/H(+) exchangeactivity. Affects the pH sensitivity of SLC9A1/NHE1 by increasingits sensitivity at acidic pH. Required for the stabilization andlocalization of SLC9A1/NHE1 at the plasma membrane. Inhibitsserum- and GTPase-stimulated Na(+)/H(+) exchange. Plays a role asan inhibitor of ribosomal RNA transcription by repressing thenucleolar UBF1 transcriptional activity. May sequester UBF1 in thenucleoplasm and limit its translocation to the nucleolus.Associates to the ribosomal gene promoter. Acts as a negativeregulator of the calcineurin/NFAT signaling pathway. Inhibits NFATnuclear translocation and transcriptional activity by suppressingthe calcium-dependent calcineurin phosphatase activity. Alsonegatively regulates the kinase activity of the apoptosis-inducedkinase STK17B. Inhibits both STK17B auto- and substrate-phosphorylations in a calcium-dependent manner.{ECO:0000269|PubMed:10593895, ECO:0000269|PubMed:11350981,ECO:0000269|PubMed:15035633, ECO:0000269|PubMed:8901634}.

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 CHP1_SMAD3


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 CHP1_SMAD3


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
CHP1SLC9A1, SLC9A2, SLC9A3, SLC9A4, SLC9A5, PRSS23, ELAVL1, SHMT2, MOV10, NXF1, TMEM216, XPO1, DUSP22, DUSP6, UBCSMAD3ATF2, NEDD9, AR, BRCA2, PML, ZFYVE9, ANAPC10, FOXO1, FOXO4, FOXO3, SMAD4, BTRC, PIAS3, RNF111, NOTCH1, EID2, NR3C1, SKI, HIPK2, PIAS4, ZEB1, ATF3, DVL1, ERBB2IP, TGIF1, TGIF2, MDM4, SKIL, CDC27, CDC16, DAB2, JUN, FOS, KPNB1, RBL1, E2F4, CTNNB1, RUNX2, TFE3, MAX, SMURF2, AKT1, SMAD2, MECOM, FOXH1, MEN1, NFYC, MYC, SP1, JUNB, JUND, RUNX1, RUNX3, SNW1, STRAP, SMAD7, ACVR1B, CEBPA, CEBPB, CEBPD, LEF1, PIN1, CSNK1G2, GSK3B, KDM5C, BMP7, FOXL2, UCHL5, PRDM16, BPTF, CDC25A, CUL1, FLI1, HOXC11, SS18L1, ZBTB3, NEDD4, EP300, CITED2, WWP1, SMURF1, ITCH, GRIP1, MYOCD, YY1, MED15, MED24, MED6, KAT2B, HDAC5, HDAC4, CREBBP, TOB1, BRCA1, SOX9, PITX1, PITX2, HDAC1, SIN3A, VDR, KAT2A, SMARCC2, ARID1A, SMARCC1, SMARCA4, TRIM33, NCOA3, RBX1, CTCF, KDM6B, ESR1, SRY, ACTB, PRTN3, SREBF2, STUB1, WWP2, MKL1, USP9X, NFIC, HNF4A, TP53, NUP214, NUP153, USP15, CDK8, CDK9, MAPK1, YAP1, DACH1, EPAS1, RGCC, SUV39H1, TCF12, CBL, ZEB2, NEDD4L, TRIB3, HGS, PAX6, ZMIZ1, PIAS2, CSNK1D, DDX3Y, HSPA4, LEMD3, PJA1, RPL3, ATXN2L, FAM83G, CHD8, RPSAP15, SLC25A12, SLC9A3R2, LRCH1, YTHDF2, TCP1, EPB41L5, PTPN6, DOCK9, PSPC1, DDX4, DDX3X, DNAJA2, SIK3, U2AF2, DHX8, C1orf116, ITGB4, CDK11A, RAB11FIP5, SMAD1, IRS1, SMAD5, DYRK1A, BUB3, SQRDL, PABPC1, DCAF7, OPA1, VAV2, USP7, RPL4, TGFBR1, S100A4, CHUK, APP, SMAD3, CDK4, CDK2, HIF1A, ELAC2, NOTCH4, PSMD11, MCM3AP, CYP11A1, RPLP0, SNRNP70, XRCC6, HIVEP1, FLNA, TGM2, PPP2R1A, ZNF83, CSH2, ZBTB16, PCDH1, PAPPA, TMED1, ANK3, EBI3, NCOA6, PLAG1, CXXC5, KANSL1, ZNF329, GGA1, SVEP1, RANBP9, SAP130, C10orf54, HEYL, CFDP1, ST6GALNAC2, PRDM4, PLAGL1, KMT2B, KDM2A, MTF2, HEY1, GMEB1, SPTBN1, DEDD, SH2D2A, LCK, PIK3CA, KLF5, IRF7, TSC2, FHL1, FHL2, FHL3, TGFB1I1, BAG3, MYD88, PCK2, SQSTM1, PPP1R12C, RNF31, ZC3H12A, TSC22D4, SETD2, CHRD, APMAP, HNRNPK, PARP4, PLG, CFH, AATF, FBLN1, ZMYND11, UBQLN4, TDP2, TF, APOB, NR4A1, HP, ISL1, LBP, PROX1, RCVRN, RELA, RPA1, TLR4, CFLAR, GIT2, TANK, DNAJB4, CORO1A, ZCCHC14, SERTAD1, RIOK2, CPTP, OTUB1, TP63, TRIM62, FOXM1, MAFK, BACH1, AES, PHC2, MEOX2, BLZF1, CPSF7, CCDC33, TEKT4, PPARG, DDX5, EIF4B, XPO6, SMAD9, LACRT, LDLRAD4, NFIA, NCOA1, PARD3, CAMK2G, ETS1, MAP3K7, MAPK8, CDKN1A, NF2, DNMT3L, TRIM25


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 CHP1_SMAD3


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
HgeneCHP1Q99653DB11093Calcium CitrateCalcineurin B homologous protein 1small moleculeapproved
HgeneCHP1Q99653DB11348Calcium PhosphateCalcineurin B homologous protein 1small moleculeapproved

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RelatedDiseases for CHP1_SMAD3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneSMAD3C0029408Degenerative polyarthritis2CTD_human
TgeneSMAD3C0376634Craniofacial Abnormalities2CTD_human
TgeneSMAD3C3151087LOEYS-DIETZ SYNDROME 32ORPHANET;UNIPROT
TgeneSMAD3C0002949Aneurysm, Dissecting1CTD_human
TgeneSMAD3C0003486Aortic Aneurysm1CTD_human;HPO
TgeneSMAD3C0010346Crohn Disease1CTD_human
TgeneSMAD3C0023267Fibroid Tumor1CTD_human
TgeneSMAD3C0023890Liver Cirrhosis1CTD_human
TgeneSMAD3C0023891Liver Cirrhosis, Alcoholic1CTD_human
TgeneSMAD3C0042138Uterine Neoplasms1CTD_human
TgeneSMAD3C0600519Ventricular Remodeling1CTD_human
TgeneSMAD3C2697932Loeys-Dietz Syndrome1CTD_human
TgeneSMAD3C3495559Juvenile arthritis1CTD_human