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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: 35198

FusionGeneSummary for SNRPD1_OSBPL1A

check button Fusion gene summary
Fusion gene informationFusion gene name: SNRPD1_OSBPL1A
Fusion gene ID: 35198
HgeneTgene
Gene symbol

SNRPD1

OSBPL1A

Gene ID

6633

114876

Gene namesmall nuclear ribonucleoprotein D2 polypeptideoxysterol binding protein like 1A
SynonymsSMD2|SNRPD1|Sm-D2ORP-1|ORP1|OSBPL1B
Cytomap

19q13.32

18q11.2

Type of geneprotein-codingprotein-coding
Descriptionsmall nuclear ribonucleoprotein Sm D2small nuclear ribonucleoprotein D2 polypeptide 16.5kDasnRNP core protein D2oxysterol-binding protein-related protein 1OSBP-related protein 1oxysterol binding protein-like 1Boxysterol-binding protein-related protein 1 variant 1oxysterol-binding protein-related protein 1 variant 2
Modification date2018052320180523
UniProtAcc

P62314

Q9BXW6

Ensembl transtripts involved in fusion geneENST00000300413, ENST00000579618, 
ENST00000582475, 
ENST00000319481, 
ENST00000399443, ENST00000357041, 
ENST00000399441, ENST00000582618, 
Fusion gene scores* DoF score3 X 3 X 2=1811 X 9 X 9=891
# samples 312
** MAII scorelog2(3/18*10)=0.736965594166206
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(12/891*10)=-2.8923910259134
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: SNRPD1 [Title/Abstract] AND OSBPL1A [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
HgeneSNRPD1

GO:0000387

spliceosomal snRNP assembly

18984161


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
TCGARVESCATCGA-L5-A4OF-01ASNRPD1chr18

19192404

+OSBPL1Achr18

21957499

-
* 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
5CDS-5UTRENST00000300413ENST00000319481SNRPD1chr18

19192404

+OSBPL1Achr18

21957499

-
5CDS-intronENST00000300413ENST00000399443SNRPD1chr18

19192404

+OSBPL1Achr18

21957499

-
5CDS-intronENST00000300413ENST00000357041SNRPD1chr18

19192404

+OSBPL1Achr18

21957499

-
5CDS-5UTRENST00000300413ENST00000399441SNRPD1chr18

19192404

+OSBPL1Achr18

21957499

-
5CDS-5UTRENST00000300413ENST00000582618SNRPD1chr18

19192404

+OSBPL1Achr18

21957499

-
5CDS-5UTRENST00000579618ENST00000319481SNRPD1chr18

19192404

+OSBPL1Achr18

21957499

-
5CDS-intronENST00000579618ENST00000399443SNRPD1chr18

19192404

+OSBPL1Achr18

21957499

-
5CDS-intronENST00000579618ENST00000357041SNRPD1chr18

19192404

+OSBPL1Achr18

21957499

-
5CDS-5UTRENST00000579618ENST00000399441SNRPD1chr18

19192404

+OSBPL1Achr18

21957499

-
5CDS-5UTRENST00000579618ENST00000582618SNRPD1chr18

19192404

+OSBPL1Achr18

21957499

-
5UTR-5UTRENST00000582475ENST00000319481SNRPD1chr18

19192404

+OSBPL1Achr18

21957499

-
5UTR-intronENST00000582475ENST00000399443SNRPD1chr18

19192404

+OSBPL1Achr18

21957499

-
5UTR-intronENST00000582475ENST00000357041SNRPD1chr18

19192404

+OSBPL1Achr18

21957499

-
5UTR-5UTRENST00000582475ENST00000399441SNRPD1chr18

19192404

+OSBPL1Achr18

21957499

-
5UTR-5UTRENST00000582475ENST00000582618SNRPD1chr18

19192404

+OSBPL1Achr18

21957499

-

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FusionProtFeatures for SNRPD1_OSBPL1A


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
SNRPD1

P62314

OSBPL1A

Q9BXW6

Core component of the spliceosomal U1, U2, U4 and U5small nuclear ribonucleoproteins (snRNPs), the building blocks ofthe spliceosome. Thereby, plays an important role in the splicingof cellular pre-mRNAs. Most spliceosomal snRNPs contain a commonset of Sm proteins SNRPB, SNRPD1, SNRPD2, SNRPD3, SNRPE, SNRPF andSNRPG that assemble in a heptameric protein ring on the Sm site ofthe small nuclear RNA to form the core snRNP. May act as a chargedprotein scaffold to promote snRNP assembly or strengthen snRNP-snRNP interactions through nonspecific electrostatic contacts withRNA. {ECO:0000269|PubMed:18984161, ECO:0000269|PubMed:23333303}. Binds phospholipids; exhibits strong binding tophosphatidic acid and weak binding to phosphatidylinositol 3-phosphate (By similarity). Stabilizes GTP-bound RAB7A on lateendosomes/lysosomes and alters functional properties of lateendocytic compartments via its interaction with RAB7A(PubMed:16176980). Binds 25-hydroxycholesterol and cholesterol(PubMed:17428193). {ECO:0000250, ECO:0000269|PubMed:16176980,ECO:0000269|PubMed:17428193}.

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 SNRPD1_OSBPL1A


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 SNRPD1_OSBPL1A


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
SNRPD1LSM8, RNU11, PRMT5, CLNS1A, WDR77, GEMIN5, SMN1, SNRPD2, SF3A2, DDX20, SMN2, CDC5L, SRRM2, RBM39, SREK1, HDGF, ARRB1, ARRB2, HNRNPA1, CUL3, CUL4A, CUL4B, CUL5, CUL2, CUL1, COPS5, COPS6, DCUN1D1, CAND1, NEDD8, SNRPB, SF3B3, SNRPE, SF3A1, SNRPA1, SNRPD3, PRPF8, SNRNP70, LSM2, SF3B1, SF3B2, YBX1, HNRNPU, SF3B5, SF3B6, HNRNPK, PRPF6, SNRNP200, HNRNPM, EFTUD2, U2AF2, HNRNPA2B1, PRPF19, TPR, SART1, DDX5, BCAS2, TOP1, EEF1A1, HSPA5, UCHL3, TRIM28, RPS7, SRP14, SUPT16H, HSP90AB1, PTGES3, APEX1, ESR1, MAGOH, EIF4A3, SMURF1, CTNNB1, FN1, VCAM1, U2AF1, LSM3, IFIT1, IFIT2, IFIT3, IL7R, ITGA4, PAN2, CD81, IGSF8, ICAM1, NPM1, EGFR, SRPK2, SRPK3, PRPF4B, FERMT2, PDHB, SCLY, EIF5, WWOX, ASB1, ASB2, OBSL1, EZH2, SUZ12, EED, RNF2, BLK, DDX23, SNRNP40, SNUPN, MCFD2, PRPF31, RCC2, RUVBL1, SF3A3, DHX9, DPY30, LSM7, LUC7L, LUC7L2, PDCD4, SNRPF, TIA1, TMOD3, USP7, YWHAE, YWHAQ, RNU12, GEMIN7, CRBN, PTPN4, SNRPN, SNRPG, CD2BP2, LSM6, GEMIN2, PRPF3, NCL, CYLD, AAR2, EAPP, TSSC4, HEY1, LMNAOSBPL1ABCL6, NPM1, BIN3, HEXIM1, C9orf41, VAPB, POLG2, KIFAP3, TSC22D2, VAPA, HIF1AN, DMD, CTNNA3, ZNF331, BSPRY, PRPF31, TRIM25, BAALC


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 SNRPD1_OSBPL1A


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 SNRPD1_OSBPL1A


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