RBM39 - RNA binding motif protein 39 Gene

Also Known as HCC1; CAPER; RNPC2; FSAP59; CAPERalpha

Species: Homo sapiens

Gene Type: protein coding
Gene ID: 9584

About RBM39

Cytogenetic location: 20q11.22 Genomic coordinates (GRCh38): 20:35,701,347-35,742,260 (from NCBI)

This gene has 47 transcripts (splice variants), 279 orthologues and 36 paralogues. Ubiquitous expression in bone marrow (RPKM 103.4), lymph node (RPKM 47.1) and 25 other tissues.

Summary

This gene encodes a member of the U2AF65 family of proteins. The encoded protein is found in the nucleus, where it co-localizes with core spliceosomal proteins. It has been shown to play a role in both steroid hormone receptor-mediated transcription and alternative splicing, and it is also a transcriptional coregulator of the viral oncoprotein v-Rel. Multiple transcript variants have been observed for this gene. A related pseudogene has been identified on chromosome X. [provided by RefSeq, Aug 2011]

RBM39 Products (7)

mRNA Protein Name
NM_001242599.2 NP_001229528.1 RNA-binding protein 39 isoform c
NM_001242600.2 NP_001229529.1 RNA-binding protein 39 isoform d
NM_001323422.2 NP_001310351.1 RNA-binding protein 39 isoform e
NM_001323423.2 NP_001310352.1 RNA-binding protein 39 isoform f
NM_001323424.2 NP_001310353.1 RNA-binding protein 39 isoform g
NM_004902.4 NP_004893.1 RNA-binding protein 39 isoform b
NM_184234.3 NP_909122.1 RNA-binding protein 39 isoform a

Gene Ontology

  • Molecular Function
  • Biological Process
  • Cellular Component
Molecular Function GO Annotation Evidence References Source
enables protein binding IPI
IPI: Inferred from physical interaction
15798186 GOA
Biological Process GO Annotation Evidence References Source
involved in regulation of mRNA splicing, via spliceosome IDA
IDA: Inferred from direct assay
15694343 GOA
involved in regulation of mRNA splicing, via spliceosome IMP
IMP: Inferred from mutant phenotype
28302793 GOA
Cellular Component GO Annotation Evidence References Source
located in nuclear speck IMP
IMP: Inferred from mutant phenotype
28437394 GOA
part of protein-containing complex IMP
IMP: Inferred from mutant phenotype
28437394 GOA
EXP: Inferred from Experiment IDA: Inferred from direct assay IPI: Inferred from physical interaction IMP: Inferred from mutant phenotype IGI: Inferred from genetic interaction IEP: Inferred from expression pattern

RBM39 Protein Structure

RRM_1

RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) (155 - 220)

RRM_1

RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) (252 - 322)

RBM39linker

RBM39linker: linker between RRM2 and RRM3 domains in RBM39 protein (339 - 410)

RBM39linker

RBM39linker: linker between RRM2 and RRM3 domains in RBM39 protein (408 - 442)

RRM_5

RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) (452 - 505)

  • 0
  • 100
  • 200
  • 300
  • 400
  • 500
  • 530 a.a.
Protein Preferred Names Protein Names

RNA-binding protein 39

  • CAPER alpha

RBM39 Protein-protein interaction Information

Type
Protein Name Protein ID Interactor Interactor Species Interactor ID Detection Method References
Intra
RBM39 Q14498 KRTAP12-2 Homo sapiens P59991
Y2H Prey Pooling
25416956
Intra
RBM39 Q14498 KRTAP12-2 Homo sapiens P59991
Y2H Array
25416956
Intra
RBM39 Q14498 KRTAP12-2 Homo sapiens P59991
Validated Y2H
25416956
Intra
RBM39 Q14498 NKAPD1 Homo sapiens Q6ZUT1-2
Y2H Prey Pooling
25416956
Intra
RBM39 Q14498 ARL6IP4 Homo sapiens Q66PJ3-3
Validated Y2H
25416956
Intra
RBM39 Q14498 ARL6IP4 Homo sapiens Q66PJ3-3
Y2H Array
25416956
Intra
RBM39 Q14498 SREK1IP1 Homo sapiens Q8N9Q2
Validated Y2H
25416956
Intra
RBM39 Q14498 SAP18 Homo sapiens O00422
Validated Y2H
25416956
Intra
RBM39 Q14498 SAP18 Homo sapiens O00422
Y2H Prey Pooling
32296183
Intra
RBM39 Q14498 SAP18 Homo sapiens O00422
Y2H Array
32296183
Intra
RBM39 Q14498 SAP18 Homo sapiens O00422
Anti Tag CoIP
35271311
Intra
RBM39 Q14498 SREK1 Homo sapiens Q8WXA9
Validated Y2H
32296183
Intra
RBM39 Q14498 SREK1 Homo sapiens Q8WXA9
Y2H Array
32296183
Intra
RBM39 Q14498 SREK1 Homo sapiens Q8WXA9
Y2H Prey Pooling
32296183
Intra
RBM39 Q14498 SRSF11 Homo sapiens Q05519
Validated Y2H
25416956
Intra
RBM39 Q14498 SRSF11 Homo sapiens Q05519
Y2H Prey Pooling
25416956
Intra
RBM39 Q14498 SRSF11 Homo sapiens Q05519-2
Y2H Array
32296183
Intra
RBM39 Q14498 SRSF11 Homo sapiens Q05519-2
Y2H Prey Pooling
32296183
Intra
RBM39 Q14498 POU6F2 Homo sapiens P78424
Y2H Prey Pooling
32296183
Intra
RBM39 Q14498 POU6F2 Homo sapiens P78424
Y2H Array
32296183
Intra
RBM39 Q14498 CSNK2A1 Homo sapiens P68400
Y2H Prey Pooling
32296183
Intra
RBM39 Q14498 CSNK2A1 Homo sapiens P68400
Y2H Array
32296183
Intra
RBM39 Q14498 CSNK2B Homo sapiens P67870
Y2H Prey Pooling
32296183
Intra
RBM39 Q14498 CSNK2B Homo sapiens P67870
Y2H Array
32296183
Intra
RBM39 Q14498 CSNK2B Homo sapiens P67870
Anti Tag CoIP
35271311
Intra
RBM39 Q14498 SF3B4 Homo sapiens Q15427
Anti Tag CoIP
35271311
Intra
RBM39 Q14498 SRRM4 Homo sapiens A7MD48
Y2H Prey Pooling
32296183
Intra
RBM39 Q14498 SRRM4 Homo sapiens A7MD48
Y2H Array
32296183
Intra
RBM39 Q14498 NKAPD1 Homo sapiens Q6ZUT1
Y2H Prey Pooling
25416956
Intra
RBM39 Q14498 NKAPD1 Homo sapiens Q6ZUT1
Validated Y2H
25416956
Intra
RBM39 Q14498 NKAPD1 Homo sapiens Q6ZUT1
Y2H Prey Pooling
32296183
Intra
RBM39 Q14498 NKAPD1 Homo sapiens Q6ZUT1
Validated Y2H
32296183
Intra
RBM39 Q14498 NKAPD1 Homo sapiens Q6ZUT1
Y2H Array
32296183
Intra
RBM39 Q14498 PPIG Homo sapiens Q13427
Y2H Prey Pooling
25416956
Intra
RBM39 Q14498 PPIG Homo sapiens Q13427
Anti Tag CoIP
35271311
Intra
RBM39 Q14498 PPIG Homo sapiens Q13427
Y2H Array
25416956
Intra
RBM39 Q14498 PRPF40A Homo sapiens O75400-2
Y2H Prey Pooling
25416956
Intra
RBM39 Q14498 SRPK1 Homo sapiens Q96SB4
Protein Kinase Assay
23602568
Intra
RBM39 Q14498 SRPK1 Homo sapiens Q96SB4
Anti Tag CoIP
35271311
Intra
RBM39 Q14498 SRPK2 Homo sapiens P78362
BiFC
23602568
Intra
RBM39 Q14498 SRPK2 Homo sapiens P78362
Y2H
22365833
Intra
RBM39 Q14498 SRPK2 Homo sapiens P78362
Y2H Prey Pooling
25416956
Intra
RBM39 Q14498 SRPK2 Homo sapiens P78362
Y2H Array
25416956
Intra
RBM39 Q14498 SRPK2 Homo sapiens P78362
Anti Tag CoIP
35271311
Intra
RBM39 Q14498 ZCCHC10 Homo sapiens Q8TBK6
Validated Y2H
25416956
Intra
RBM39 Q14498 ZCCHC10 Homo sapiens Q8TBK6
Y2H
22365833
Intra
RBM39 Q14498 ZCCHC10 Homo sapiens Q8TBK6
Y2H Prey Pooling
25416956
Intra
RBM39 Q14498 PHC2 Homo sapiens Q8IXK0
Y2H Array
25416956
Intra
RBM39 Q14498 INO80B Homo sapiens Q9C086
Validated Y2H
32296183
Intra
RBM39 Q14498 SDCBP Homo sapiens O00560
Y2H Array
25416956
Intra
RBM39 Q14498 SDCBP Homo sapiens O00560
Y2H Prey Pooling
25416956
Intra
RBM39 Q14498 DVL3 Homo sapiens Q92997
Y2H Array
32296183
Intra
RBM39 Q14498 DVL3 Homo sapiens Q92997
Y2H Prey Pooling
32296183
Intra
RBM39 Q14498 DVL3 Homo sapiens Q92997
Validated Y2H
32296183
Intra
RBM39 Q14498 THAP1 Homo sapiens Q9NVV9
Y2H Prey Pooling
25416956
Intra
RBM39 Q14498 THAP1 Homo sapiens Q9NVV9
Y2H Prey Pooling
32296183
Intra
RBM39 Q14498 THAP1 Homo sapiens Q9NVV9
Validated Y2H
25416956
Intra
RBM39 Q14498 THAP1 Homo sapiens Q9NVV9
Validated Y2H
32296183
Intra
RBM39 Q14498 THAP1 Homo sapiens Q9NVV9
Y2H Array
32296183
Intra
RBM39 Q14498 CLK2 Homo sapiens P49760
Y2H Prey Pooling
25416956
Intra
RBM39 Q14498 CLK2 Homo sapiens P49760
Validated Y2H
25416956
Intra
RBM39 Q14498 CLK2 Homo sapiens P49760
Y2H Prey Pooling
32296183
Intra
RBM39 Q14498 CLK2 Homo sapiens P49760
Y2H Array
25416956
Intra
RBM39 Q14498 CLK2 Homo sapiens P49760
Y2H Array
32296183
Intra
RBM39 Q14498 KHDC4 Homo sapiens Q7Z7F0
Validated Y2H
25416956
Intra
RBM39 Q14498 KHDC4 Homo sapiens Q7Z7F0
Y2H Prey Pooling
25416956
Intra
RBM39 Q14498 KHDC4 Homo sapiens Q7Z7F0
Y2H Array
25416956
Intra
RBM39 Q14498 AK8 Homo sapiens Q96MA6
Validated Y2H
25416956
Intra
RBM39 Q14498 PCBP1 Homo sapiens Q15365
Anti Tag CoIP
35271311
Cross: Cross-species interaction Intra: Intraspecies interaction

Related Diseases

Diseases Alias
Hepatocellular Carcinoma

  • Liver Cancer

  • Primary Liver Cancer

  • HCC

  • Hepatoma

  • Malignant Neoplasm Of Liver

  • Liver Neoplasms

  • Cancer, Hepatocellular

  • Liver Cell Carcinoma

  • Lcc

  • Hepatoblastoma, Somatic

  • Hepatic Cancer

  • Primary Malignant Neoplasm Of Liver

  • Rare Tumor Of Liver And Intrahepatic Biliary Tract

  • Hepatocellular Carcinoma, Somatic

  • Hepatocellular Carcinoma, Childhood Type, Somatic

  • Hepatocellular Cancer, Somatic

  • Ca Liver - Primary

  • Hepatic Neoplasm

  • Malignant Hepato-Biliary Neoplasm

  • Malignant Neoplasm Of Liver, Not Specified As Primary Or Secondary

  • Malignant Neoplasm Of Liver, Primary

  • Malignant Tumor Of Liver

  • Neoplasm Of Liver

  • Non-Resectable Primary Hepatic Malignant Neoplasm

  • Resectable Malignant Neoplasm Of Liver

  • Resectable Malignant Neoplasm Of The Liver

  • Primary Liver Carcinoma

  • Primary Malignant Liver Neoplasm

  • Primary Cancer Of Liver

  • Primary Tumor Of The Liver

  • Rare Tumor Of Liver And Ibt

  • Hepatocellular Cancer

  • Neoplasm Of The Liver

  • Carcinoma, Hepatocellular

  • Hepatomas

  • Liver Neoplasm

  • Liver Carcinoma

  • Liver And Intrahepatic Biliary Tract Carcinoma

  • Malignant Hepatobiliary Neoplasm

  • Adult Primary Hepatocellular Carcinoma

  • Hepatoblastoma

  • Carcinoma Of Liver

  • Malignant Liver Tumour

  • Malignant Hepatic Tumour
Diseases Alias
Waldenstroem'S Macroglobulinemia

Waldenstroem'S Macroglobulinemia

Waldenstroem'S Macroglobulinemia

Macroglobulinemia Of Waldenstrom

Lymphoplasmacytic Lymphoma With Igm Gammopathy

Lymphoplasmacytic Lymphoma

Waldenstroem'S Macroglobulinemia

Waldenstroem'S Macroglobulinemia

Macroglobulinemia Of Waldenstrom

Lymphoplasmacytic Lymphoma With Igm Gammopathy

Lymphoplasmacytic Lymphoma

Related Agents

  • Clinical Phase
  • Pre-clinical Phase

Clinical Phase

Bioactive Molecules (1)
Cat. No. Product Name Effect
Purity Phase
HY-13650 Indisulam Inhibitor 99.80% Phase 2

Pre-clinical Phase

Bioactive Molecules (9)
Cat. No. Product Name
Effect
Purity
Rare Diseases
HY-14571 E7820 Inhibitor 99.26% Unkown
HY-W133627 dCeMM1 99.53% Unkown
HY-149441 Indisulam analog-1 / Unkown
HY-173274 CB039 98.10% Unkown
HY-177779 dRRM-1 / Unkown
HY-183755 YSA64 / Unkown
HY-RS11751 RBM39 Human Pre-designed siRNA Set A Pre-designed Set / Unkown
HY-RS17233 Rbm39 Mouse Pre-designed siRNA Set A Pre-designed Set / Unkown
HY-RS23686 Rbm39 Rat Pre-designed siRNA Set A Pre-designed Set / Unkown

Orthologs Information

Species Symbol Source ID
Rattus norvegicus RBM39 RGD RGD:1310071
Mus musculus RBM39 MGD MGI:2157953
Canis familiaris RBM39 VGNC VGNC:45420
Macaca mulatta RBM39 VGNC VGNC:98434
Felis catus RBM39 VGNC VGNC:64529
Bos taurus RBM39 VGNC VGNC:33799
Others RBM39 NCBI