Rbms3 RNA binding motif, single stranded interacting protein [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Rbms3provided by MGI
Official Full Name: RNA binding motif, single stranded interacting proteinprovided by MGI
Primary source: MGI:MGI:2444477
See related: Ensembl:ENSMUSG00000039607 AllianceGenome:MGI:2444477
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: 6720477E09Rik; 8430436O14Rik
Summary: Enables mRNA 3'-UTR binding activity. Acts upstream of or within positive regulation of translation. Predicted to be located in cytoplasm. Predicted to be part of ribonucleoprotein complex. Predicted to be active in cytosol and nucleus. Is expressed in several structures, including genitourinary system; gut; liver; and nervous system. Orthologous to human RBMS3 (RNA binding motif single stranded interacting protein 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Broad expression in limb E14.5 (RPKM 4.8), bladder adult (RPKM 3.3) and 23 other tissues See more
Orthologs: human all
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Genomic context

Location:: 9; 9 F3

Exon count:: 30

Annotation release	Status	Assembly	Chr	Location
109	current	GRCm39 (GCF_000001635.27)	9	NC_000075.7 (116401814..117869900, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	9	NC_000075.6 (116572746..117629913, complement)

Chromosome 9 - NC_000075.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Transposon Mutagenesis Reveals RBMS3 Silencing as a Promoter of Malignant Progression of BRAFV600E-Driven Lung Tumorigenesis.
Title: Transposon Mutagenesis Reveals RBMS3 Silencing as a Promoter of Malignant Progression of BRAFV600E-Driven Lung Tumorigenesis.
binding of Rbms3 to the 3'UTR of Ptf1a regulates the production of the Ptf1a protein
Title: Rbms3, an RNA-binding protein, mediates the expression of Ptf1a by binding to its 3'UTR during mouse pancreas development.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (1)

General gene information

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Markers

Rbms3 (e-PCR), detects polymorphism
- UniSTS:479239

D9Dcr130 (e-PCR), detects polymorphism
- UniSTS:499032

RH132871 (e-PCR)
- UniSTS:216154

D9Mit56 (e-PCR), detects polymorphism
- UniSTS:131942

RH136029 (e-PCR)
- UniSTS:210024

D9Jpk2 (e-PCR), detects polymorphism
- UniSTS:142747

D9Mit201 (e-PCR), detects polymorphism
- UniSTS:131758

NoName (e-PCR)
- UniSTS:224966

NoName (e-PCR)
- UniSTS:236276

Homology

Homologs of the Rbms3 gene: The Rbms3 gene is conserved in human, chimpanzee, Rhesus monkey, dog, cow, rat, chicken, zebrafish, and frog.
Orthologs from Annotation Pipeline: 442 organisms have orthologs with human gene Rbms3
Orthologs

Gene Ontology Provided by MGI

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

Process	Evidence Code	Pubs
involved_in defense response to tumor cell	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of gene expression	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of translation	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info	PubMed
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info	PubMed
part_of ribonucleoprotein complex	IBA Inferred from Biological aspect of Ancestor more info	PubMed

General protein information

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

Names: RNA-binding protein RBMS3

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_001172121.1 → NP_001165592.1 RNA-binding motif, single-stranded-interacting protein 3 isoform 4

See identical proteins and their annotated locations for NP_001165592.1

Status: VALIDATED

Description

Transcript Variant: This variant (4) encodes the longest protein (isoform 4).

Source sequence(s)

AC138313, AK046197, BE136226

Consensus CDS

CCDS57712.1

UniProtKB/Swiss-Prot

Q8BWL5

Related

ENSMUSP00000131371.3, ENSMUST00000164018.9

Conserved Domains (2) summary

cd12475
Location:183 → 270

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

cl17169
Location:100 → 183

RRM_SF; RNA recognition motif (RRM) superfamily
NM_001172122.1 → NP_001165593.1 RNA-binding motif, single-stranded-interacting protein 3 isoform 2

See identical proteins and their annotated locations for NP_001165593.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) has multiple differences in the 5' UTR and in the coding region, compared to variant 4. The resulting protein (isoform 3) has multiple differences when it is compared to isoform 4.

Source sequence(s)

AC138313, AK030609, AK041098, BE136226

Consensus CDS

CCDS52955.1

UniProtKB/Swiss-Prot

Q8BWL5

UniProtKB/TrEMBL

A0A8C6GJ89

Related

ENSMUSP00000107402.4, ENSMUST00000111772.10

Conserved Domains (2) summary

cd12475
Location:134 → 221

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

cl17169
Location:51 → 134

RRM_SF; RNA recognition motif (RRM) superfamily
NM_001172123.1 → NP_001165594.1 RNA-binding motif, single-stranded-interacting protein 3 isoform 1

See identical proteins and their annotated locations for NP_001165594.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) uses different segments for its 5' UTR and 5' coding region, and contains an alternate exon in its 3' coding region, compared to variant 4. The resulting protein (isoform 1) has multiple differences when it is compared to isoform 4.

Source sequence(s)

AC138313, AK041098, AK052196, BE136226

Consensus CDS

CCDS52957.1

UniProtKB/Swiss-Prot

Q8BMN1, Q8BWL5

UniProtKB/TrEMBL

A0A8C6GJL5

Related

ENSMUSP00000107403.4, ENSMUST00000111773.10

Conserved Domains (2) summary

cd12475
Location:134 → 221

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

cl17169
Location:51 → 134

RRM_SF; RNA recognition motif (RRM) superfamily
NM_001172124.1 → NP_001165595.1 RNA-binding motif, single-stranded-interacting protein 3 isoform 5

See identical proteins and their annotated locations for NP_001165595.1

Status: VALIDATED

Description

Transcript Variant: This variant (5) has multiple differences in the 5' UTR and in the coding region, one of which changes the reading frame, compared to variant 4. The resulting protein (isoform 5) has multiple differences including a distinct and shorter C-terminus when it is compared to isoform 4.

Source sequence(s)

AC138313, AK033005, AK041098, BE136226

Consensus CDS

CCDS52956.1

UniProtKB/Swiss-Prot

Q8BWL5

UniProtKB/TrEMBL

A0A8C6GIC4

Related

ENSMUSP00000133621.2, ENSMUST00000174868.8

Conserved Domains (2) summary

cd12472
Location:52 → 131

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

cd12475
Location:134 → 221

RRM2_RBMS3; RNA recognition motif 2 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
NM_001172126.1 → NP_001165597.1 RNA-binding motif, single-stranded-interacting protein 3 isoform 6

See identical proteins and their annotated locations for NP_001165597.1

Status: VALIDATED

Description

Transcript Variant: This variant (6) has multiple differences in the 5' UTR and in the coding region, one of which changes the reading frame, compared to variant 4. The resulting protein (isoform 6) has multiple differences including a distinct and shorter C-terminus when it is compared to isoform 4.

Source sequence(s)

AC138313, AK041098, BE136226

Consensus CDS

CCDS57711.1

UniProtKB/Swiss-Prot

Q8BWL5

Related

ENSMUSP00000039706.8, ENSMUST00000044901.14

Conserved Domains (2) summary

cd12472
Location:52 → 131

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

cd12475
Location:134 → 221

RRM2_RBMS3; RNA recognition motif 2 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
NM_178660.4 → NP_848775.2 RNA-binding motif, single-stranded-interacting protein 3 isoform 3

See identical proteins and their annotated locations for NP_848775.2

Status: VALIDATED

Description

Transcript Variant: This variant (3) uses different segments for its 5' UTR and 5' coding region, compared to variant 4. The resulting protein (isoform 3) has a shorter and distinct N-terminus when it is compared to isoform 4.

Source sequence(s)

AC138313, AK030478, AK041098, BC108402, BE136226

Consensus CDS

CCDS40798.1

UniProtKB/Swiss-Prot

Q8BWL5

Related

ENSMUSP00000066735.8, ENSMUST00000068962.14

Conserved Domains (2) summary

cd12475
Location:134 → 221

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

cl17169
Location:51 → 134

RRM_SF; RNA recognition motif (RRM) superfamily

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...

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

Reference GRCm39 C57BL/6J

Genomic

NC_000075.7 Reference GRCm39 C57BL/6J

Range

116401814..117869900 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036154757.1 → XP_036010650.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X1

Conserved Domains (2) summary

cd12475
Location:151 → 238

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

cd12472
Location:69 → 148

RRM1_RBMS3; RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
XM_017313253.2 → XP_017168742.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X5

Conserved Domains (2) summary

cd12475
Location:134 → 221

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

cl17169
Location:51 → 134

RRM_SF; RNA recognition motif (RRM) superfamily
XM_017313252.2 → XP_017168741.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X4

Conserved Domains (3) summary

TIGR01645
Location:78 → 367

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

cd12475
Location:134 → 221

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

cl17169
Location:51 → 134

RRM_SF; RNA recognition motif (RRM) superfamily
XM_017313251.3 → XP_017168740.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X3

Conserved Domains (2) summary

cd12475
Location:134 → 221

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

cl17169
Location:51 → 134

RRM_SF; RNA recognition motif (RRM) superfamily
XM_030244162.2 → XP_030100022.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X6

Conserved Domains (2) summary

cd12475
Location:100 → 187

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

cl17169
Location:17 → 100

RRM_SF; RNA recognition motif (RRM) superfamily
XM_036154758.1 → XP_036010651.1 RNA-binding motif, single-stranded-interacting protein 3 isoform X2

Conserved Domains (2) summary

pfam07496
Location:14 → 62

zf-CW; CW-type Zinc Finger

cl02554
Location:82 → 155

PWWP; The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins ...