RBMS3 RNA binding motif single stranded interacting protein 3 [Homo sapiens (human)] - Gene

Summary

Official Symbol: RBMS3provided by HGNC
Official Full Name: RNA binding motif single stranded interacting protein 3provided by HGNC
Primary source: HGNC:HGNC:13427
See related: Ensembl:ENSG00000144642 MIM:605786; AllianceGenome:HGNC:13427
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary: This gene encodes an RNA-binding protein that belongs to the c-myc gene single-strand binding protein family. These proteins are characterized by the presence of two sets of ribonucleoprotein consensus sequence (RNP-CS) that contain conserved motifs, RNP1 and RNP2, originally described in RNA binding proteins, and required for DNA binding. These proteins have been implicated in such diverse functions as DNA replication, gene transcription, cell cycle progression and apoptosis. The encoded protein was isolated by virtue of its binding to an upstream element of the alpha2(I) collagen promoter. The observation that this protein localizes mostly in the cytoplasm suggests that it may be involved in a cytoplasmic function such as controlling RNA metabolism, rather than transcription. Multiple alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Apr 2010]
Expression: Broad expression in thyroid (RPKM 7.8), fat (RPKM 6.1) and 23 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 3p24.1

Exon count:: 19

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	3	NC_000003.12 (29281071..30010395)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	3	NC_060927.1 (29283417..30012800)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	3	NC_000003.11 (29322562..30051886)

Chromosome 3 - NC_000003.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The RNA-binding protein RBMS3 inhibits the progression of colon cancer by regulating the stability of LIMS1 mRNA.
Title: The RNA-binding protein RBMS3 inhibits the progression of colon cancer by regulating the stability of LIMS1 mRNA.
Expression of RBMS3 in Breast Cancer Progression.
Title: Expression of RBMS3 in Breast Cancer Progression.
Comprehensive bioinformatics analysis confirms RBMS3 as the central candidate biological target for ovarian cancer.
Title: Comprehensive bioinformatics analysis confirms RBMS3 as the central candidate biological target for ovarian cancer.
Disruption of RBMS3 suppresses PD-L1 and enhances antitumor immune activities and therapeutic effects of auranofin against triple-negative breast cancer.
Title: Disruption of RBMS3 suppresses PD-L1 and enhances antitumor immune activities and therapeutic effects of auranofin against triple-negative breast cancer.
LncRNA MEG3 regulates breast cancer proliferation and apoptosis through miR-141-3p/RBMS3 axis.
Title: LncRNA MEG3 regulates breast cancer proliferation and apoptosis through miR-141-3p/RBMS3 axis.
RNA binding protein RBMS3 is a common EMT effector that modulates triple-negative breast cancer progression via stabilizing PRRX1 mRNA.
Title: RNA binding protein RBMS3 is a common EMT effector that modulates triple-negative breast cancer progression via stabilizing PRRX1 mRNA.
Tumor Suppressor Effect of RBMS3 in Breast Cancer.
Title: Tumor Suppressor Effect of RBMS3 in Breast Cancer.
Increased expression of RBMS3 predicts a favorable prognosis in human gallbladder carcinoma.
Title: Increased expression of RBMS3 predicts a favorable prognosis in human gallbladder carcinoma.
RBMS3 delays disc degeneration by inhibiting Wnt/beta-catenin signaling pathway.
Title: RBMS3 delays disc degeneration by inhibiting Wnt/β-catenin signaling pathway.
Results indicate that genetic ablation of RNA binding motif single stranded interacting protein 3 (RBMS3) contributes to chemoresistance RBMS3-deleted epithelial ovarian cancer (EOC).
Title: Loss of RBMS3 Confers Platinum Resistance in Epithelial Ovarian Cancer via Activation of miR-126-5p/β-catenin/CBP signaling.

Submit: New GeneRIF Correction See all GeneRIFs (21)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
A genome wide association study (GWAS) providing evidence of an association between common genetic variants and late radiotherapy toxicity. EBI GWAS Catalog EBI GWAS CatalogPubMed
Deciphering the impact of common genetic variation on lung cancer risk: a genome-wide association study. EBI GWAS Catalog EBI GWAS CatalogPubMed
Genetic variants associated with breast size also influence breast cancer risk. EBI GWAS Catalog EBI GWAS CatalogPubMed
Genome-wide association scan of dental caries in the permanent dentition. EBI GWAS Catalog EBI GWAS CatalogPubMed
Genome-wide association with bone mass and geometry in the Framingham Heart Study. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See Variation Viewer (GRCh37.p13)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

1294 (e-PCR)
- UniSTS:32522

SHGC-76788 (e-PCR)
- UniSTS:66577

D3S4524 (e-PCR)
- UniSTS:78611

REN9820 (e-PCR)
- UniSTS:334620

NoName (e-PCR)
- UniSTS:485409

RH119626 (e-PCR)
- UniSTS:133944

G32725 (e-PCR)
- UniSTS:117307

SHGC-76797 (e-PCR)
- UniSTS:77117

SHGC-33715 (e-PCR)
- UniSTS:5730

SHGC-76802 (e-PCR)
- UniSTS:6500

D3S647 (e-PCR)
- UniSTS:147306

108YG3 (e-PCR)
- UniSTS:13173

RH119771 (e-PCR)
- UniSTS:133247

SHGC-81044 (e-PCR)
- UniSTS:104582

D3S1609 (e-PCR), detects polymorphism
- UniSTS:20106

D3S1609 (e-PCR), detects polymorphism
- UniSTS:72342

A009P06 (e-PCR)
- UniSTS:9378

RBMS3_9544 (e-PCR)
- UniSTS:468643

RH92986 (e-PCR)
- UniSTS:84899

RH16621 (e-PCR)
- UniSTS:39336

SHGC-155138 (e-PCR)
- UniSTS:183731

D3S2981 (e-PCR)
- UniSTS:60596

D3S2396 (e-PCR)
- UniSTS:9400

SGC34293 (e-PCR)
- UniSTS:47305

SHGC-155763 (e-PCR)
- UniSTS:183759

SHGC-81005 (e-PCR)
- UniSTS:102627

SHGC-76790 (e-PCR)
- UniSTS:33513

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables mRNA 3'-UTR AU-rich region binding	IDA Inferred from Direct Assay more info	PubMed
enables mRNA 3'-UTR binding	IBA Inferred from Biological aspect of Ancestor more info
enables poly(A) binding	IBA Inferred from Biological aspect of Ancestor more info
enables poly(A) binding	IDA Inferred from Direct Assay more info	PubMed
enables poly(U) RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables poly(U) RNA binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in defense response to tumor cell	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of canonical Wnt signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
part_of ribonucleoprotein complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: RNA-binding motif, single-stranded-interacting protein 3

Names: RNA binding motif, single stranded interacting protein; RNA-binding protein

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001003792.3 → NP_001003792.1 RNA-binding motif, single-stranded-interacting protein 3 isoform 3

See identical proteins and their annotated locations for NP_001003792.1

Status: REVIEWED

Description

Transcript Variant: This variant (3), also known as DD23-S, lacks a 3 nt segment and an in-frame exon in the coding region, as compared to variant 1. The encoded isoform 3 thus lacks an internal aa and an internal segment, as compared to isoform 1.

Source sequence(s)

AC012262, AC021068, AC092795, AC097633, AC098650, AC099048, AK097311, AY236872, CA448021

Consensus CDS

CCDS33725.1

UniProtKB/Swiss-Prot

Q6XE24

Related

ENSP00000373276.2, ENST00000383766.6

Conserved Domains (3) summary

TIGR01628
Location:60 → 392

PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family

cd12475
Location:138 → 225

RRM2_RBMS3; RNA recognition motif 2 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)

cl17169
Location:56 → 135

RRM_SF; RNA recognition motif (RRM) superfamily
NM_001003793.3 → NP_001003793.1 RNA-binding motif, single-stranded-interacting protein 3 isoform 1

See identical proteins and their annotated locations for NP_001003793.1

Status: REVIEWED

Description

Transcript Variant: This variant (1), also known as DD23-L, encodes the longest isoform (1).

Source sequence(s)

AC012262, AC097633, AK097311, AY236871, CA448021

Consensus CDS

CCDS33724.1

UniProtKB/Swiss-Prot

A8K9S4, B7ZL17, G5E9J9, O75876, Q17RI0, Q6XE23, Q6XE24

Related

ENSP00000373277.2, ENST00000383767.7

Conserved Domains (2) summary

cd12475
Location:139 → 226

RRM2_RBMS3; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)

cd12472
Location:57 → 136

RRM1_RBMS3; RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
NM_001177711.2 → NP_001171182.1 RNA-binding motif, single-stranded-interacting protein 3 isoform 5

See identical proteins and their annotated locations for NP_001171182.1

Status: REVIEWED

Description

Transcript Variant: This variant (5) lacks an in-frame exon in the coding region, compared to variant 1. The encoded isoform (5) is shorter than isoform 1.

Source sequence(s)

AC012262, AC097633, AC099048, AK097311, AK292789, CA448021

Consensus CDS

CCDS54558.1

UniProtKB/Swiss-Prot

Q6XE24

Related

ENSP00000397926.1, ENST00000452462.5

Conserved Domains (3) summary

TIGR01628
Location:61 → 394

PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family

cd12475
Location:139 → 226

RRM2_RBMS3; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)

cd12472
Location:57 → 136

RRM1_RBMS3; RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
NM_001177712.2 → NP_001171183.1 RNA-binding motif, single-stranded-interacting protein 3 isoform 4

See identical proteins and their annotated locations for NP_001171183.1

Status: REVIEWED

Description

Transcript Variant: This variant (4) differs in the 3' UTR and has multiple differences in the coding region, compared to variant 1. The encoded isoform (4) is shorter and lacks the last aa, compared to isoform 1.

Source sequence(s)

AC012262, AW779062, BC117315

Consensus CDS

CCDS54557.1

UniProtKB/Swiss-Prot

Q6XE24

Related

ENSP00000400519.1, ENST00000456853.1

Conserved Domains (2) summary

cd12475
Location:139 → 226

RRM2_RBMS3; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)

cd12472
Location:57 → 136

RRM1_RBMS3; RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
NM_001330696.1 → NP_001317625.1 RNA-binding motif, single-stranded-interacting protein 3 isoform 6

Status: REVIEWED

Description

Transcript Variant: This variant (6) contains an alternate in-frame splice site in the 5' coding region, compared to variant 1. It encodes isoform 6, which is shorter by an amino acid, compared to isoform 1.

Source sequence(s)

AC012262, AC021068, AC092795, AC092796, AC097633, AC098650, AC099048, CA448021

Consensus CDS

CCDS87056.1

UniProtKB/TrEMBL

C9JIJ9

Related

ENSP00000395592.1, ENST00000434693.6

Conserved Domains (2) summary

cd12475
Location:138 → 225

RRM2_RBMS3; RNA recognition motif 2 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)

cl17169
Location:56 → 135

RRM_SF; RNA recognition motif (RRM) superfamily
NM_014483.4 → NP_055298.2 RNA-binding motif, single-stranded-interacting protein 3 isoform 2

See identical proteins and their annotated locations for NP_055298.2

Status: REVIEWED

Description

Transcript Variant: This variant (2) lacks an internal in-frame exon and the last 3' exon, but has an alternate 3' segment, as compared to variant 1. The encoded isoform 2 lacks an internal segment and the last aa, as compared to isoform 1.

Source sequence(s)

AC012262, AF023259, AW779062

Consensus CDS

CCDS33726.1

UniProtKB/Swiss-Prot

Q6XE24

Related

ENSP00000273139.9, ENST00000273139.13

Conserved Domains (3) summary

TIGR01628
Location:61 → 394

PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family

cd12475
Location:139 → 226

RRM2_RBMS3; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)

cd12472
Location:57 → 136

RRM1_RBMS3; RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000003.12 Reference GRCh38.p14 Primary Assembly

Range

29281071..30010395

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005265061.3 → XP_005265118.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X3

See identical proteins and their annotated locations for XP_005265118.1

Conserved Domains (3) summary

cd12475
Location:139 → 226

RRM2_RBMS3; RNA recognition motif 2 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)

cl17169
Location:57 → 136

RRM_SF; RNA recognition motif (RRM) superfamily

cl25887
Location:61 → 393

RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
XM_017006180.2 → XP_016861669.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X5

Conserved Domains (3) summary

TIGR01645
Location:83 → 374

half-pint; poly-U binding splicing factor, half-pint family

cd12475
Location:139 → 226

RRM2_RBMS3; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)

cd12472
Location:57 → 136

RRM1_RBMS3; RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
XM_017006179.2 → XP_016861668.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X2

Conserved Domains (3) summary

TIGR01628
Location:60 → 393

PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family

cd12475
Location:138 → 225

RRM2_RBMS3; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)

cd12472
Location:56 → 135

RRM1_RBMS3; RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
XM_017006181.2 → XP_016861670.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X6
XM_024453454.2 → XP_024309222.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X1

Conserved Domains (2) summary

cd12475
Location:139 → 226

RRM2_RBMS3; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)

cd12472
Location:57 → 136

RRM1_RBMS3; RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
XM_005265062.2 → XP_005265119.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X4

See identical proteins and their annotated locations for XP_005265119.1

Conserved Domains (3) summary

cd12475
Location:139 → 226

RRM2_RBMS3; RNA recognition motif 2 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)

cl17169
Location:57 → 136

RRM_SF; RNA recognition motif (RRM) superfamily

cl25887
Location:61 → 393

RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
XM_047447976.1 → XP_047303932.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X7
XM_005265063.3 → XP_005265120.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X7

See identical proteins and their annotated locations for XP_005265120.1

Conserved Domains (1) summary

cd12475
Location:44 → 131

RRM2_RBMS3; RNA recognition motif 2 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
XM_005265065.6 → XP_005265122.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X8

Conserved Domains (1) summary

cd12475
Location:30 → 117

RRM2_RBMS3; RNA recognition motif 2 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)

Alternate T2T-CHM13v2.0

Genomic

NC_060927.1 Alternate T2T-CHM13v2.0

Range

29283417..30012800

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054346191.1 → XP_054202166.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X3
XM_054346193.1 → XP_054202168.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X5
XM_054346190.1 → XP_054202165.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X2
XM_054346194.1 → XP_054202169.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X6
XM_054346189.1 → XP_054202164.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X1
XM_054346192.1 → XP_054202167.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X4
XM_054346196.1 → XP_054202171.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X7
XM_054346195.1 → XP_054202170.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X7
XM_054346197.1 → XP_054202172.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X7
XM_054346198.1 → XP_054202173.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X8