Rbm47 RNA binding motif protein 47 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Rbm47provided by MGI
Official Full Name: RNA binding motif protein 47provided by MGI
Primary source: MGI:MGI:2384294
See related: Ensembl:ENSMUSG00000070780 AllianceGenome:MGI:2384294
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: 9530077J19Rik
Summary: Enables RNA binding activity. Acts upstream of or within cytidine to uridine editing and hematopoietic progenitor cell differentiation. Located in nucleus. Is expressed in several structures, including alimentary system; brain ventricle and choroid plexus; genitourinary system; nasal cavity epithelium; and yolk sac. Orthologous to human RBM47 (RNA binding motif protein 47). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Broad expression in colon adult (RPKM 32.7), small intestine adult (RPKM 29.4) and 16 other tissues See more
Orthologs: human all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 5 C3.1; 5 33.93 cM

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	5	NC_000071.7 (66173892..66309297, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	5	NC_000071.6 (66016549..66151954, complement)

Chromosome 5 - NC_000071.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

RBM47 regulates intestinal injury and tumorigenesis by modifying proliferation, oxidative response, and inflammatory pathways.
Title: RBM47 regulates intestinal injury and tumorigenesis by modifying proliferation, oxidative response, and inflammatory pathways.
RBM47 is a Critical Regulator of Mouse Embryonic Stem Cell Differentiation.
Title: RBM47 is a Critical Regulator of Mouse Embryonic Stem Cell Differentiation.
RNA binding motif 47 (RBM47): emerging roles in vertebrate development, RNA editing and cancer.
Title: RNA binding motif 47 (RBM47): emerging roles in vertebrate development, RNA editing and cancer.
Post-transcriptional regulator Rbm47 elevates IL-10 production and promotes the immunosuppression of B cells.
Title: Post-transcriptional regulator Rbm47 elevates IL-10 production and promotes the immunosuppression of B cells.
A1CF and RBM47 each function independently, yet interact in a tissue-specific manner, to regulate the activity and site selection of APOBEC1 dependent C-to-U RNA editing.
Title: Apobec1 complementation factor (A1CF) and RBM47 interact in tissue-specific regulation of C to U RNA editing in mouse intestine and liver.
Study demonstrated that Rbm47 function is required in the embryo proper, and not the visceral endoderm, for viability and growth.
Title: Conditional restoration and inactivation of Rbm47 reveal its tissue-context requirement for viability and growth.
RBM47 and APOBEC1 constitute the basic machinery for C to U RNA editing.
Title: C to U RNA editing mediated by APOBEC1 requires RNA-binding protein RBM47.
RNA-binding protein Rbm47 binds to Nanog in mouse embryonic stem cells.
Title: RNA-binding protein Rbm47 binds to Nanog in mouse embryonic stem cells.

Submit: New GeneRIF Correction

Variation

Go to the top of the page Help

Alleles

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

Gene trapped (1)
Targeted (2) 1 citation

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Markers

RH126107 (e-PCR)
- UniSTS:162819

D5Ertd700e (e-PCR), detects polymorphism
- UniSTS:167463

D5Mit258 (e-PCR), detects polymorphism
- UniSTS:130393

BC013481 (e-PCR), detects polymorphism
- UniSTS:479074

RH125595 (e-PCR)
- UniSTS:162409

G67077 (e-PCR)
- UniSTS:178286

RH126336 (e-PCR)
- UniSTS:163044

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables RNA binding	IDA Inferred from Direct Assay more info	PubMed
enables RNA binding	ISO Inferred from Sequence Orthology more info
enables enzyme binding	ISO Inferred from Sequence Orthology more info
enables enzyme-substrate adaptor activity	IDA Inferred from Direct Assay more info	PubMed
enables enzyme-substrate adaptor activity	ISO Inferred from Sequence Orthology more info
enables mRNA 3'-UTR binding	IDA Inferred from Direct Assay more info	PubMed
enables mRNA 3'-UTR binding	ISO Inferred from Sequence Orthology more info
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables nucleic acid binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in 3'-UTR-mediated mRNA stabilization	IDA Inferred from Direct Assay more info	PubMed
involved_in 3'-UTR-mediated mRNA stabilization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within RNA splicing	IEA Inferred from Electronic Annotation more info
involved_in cytidine to uridine editing	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within cytidine to uridine editing	IGI Inferred from Genetic Interaction more info	PubMed
involved_in cytidine to uridine editing	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within hematopoietic progenitor cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of interleukin-10 production	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of type I interferon-mediated signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in regulation of alternative mRNA splicing, via spliceosome	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of apolipoprotein B mRNA editing enzyme complex	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

Go to the top of the page Help

Preferred Names: RNA-binding protein 47

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001127382.2 → NP_001120854.1 RNA-binding protein 47 isoform a

See identical proteins and their annotated locations for NP_001120854.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1, 2 and 3 all encode the same isoform (a).

Source sequence(s)

AK049280, AK085733, AK152971, BY315501, BY380934, CJ210661, CJ229698

Consensus CDS

CCDS19313.1

UniProtKB/Swiss-Prot

Q3UQC7, Q8BZE8, Q91WT8

Related

ENSMUSP00000128016.2, ENSMUST00000167950.8

Conserved Domains (1) summary

TIGR01648
Location:11 → 590

hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
NM_001291226.1 → NP_001278155.1 RNA-binding protein 47 isoform b

See identical proteins and their annotated locations for NP_001278155.1

Status: VALIDATED

Description

Transcript Variant: This variant (4) lacks an alternate in-frame exon in the central coding region, compared to variant 1, resulting in an isoform (b) that is shorter than isoform a.

Source sequence(s)

AC132284, AK049280, AK085733, AK089362, AK152971, BY380934, CJ210661, CJ229698

Consensus CDS

CCDS71598.1

UniProtKB/TrEMBL

D3YXZ5

Related

ENSMUSP00000092348.6, ENSMUST00000094756.11

Conserved Domains (1) summary

TIGR01648
Location:11 → 521

hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
NM_139065.3 → NP_620704.1 RNA-binding protein 47 isoform a

See identical proteins and their annotated locations for NP_620704.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) differs in the 5' UTR, compared to variant 1. Variants 1, 2 and 3 all encode the same isoform (a).

Source sequence(s)

AC132284, AK049280, AK085733, AK152971, BY380934, CJ210661, CJ229698

Consensus CDS

CCDS19313.1

UniProtKB/Swiss-Prot

Q3UQC7, Q8BZE8, Q91WT8

Related

ENSMUSP00000109355.2, ENSMUST00000113726.8

Conserved Domains (1) summary

TIGR01648
Location:11 → 590

hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
NM_178446.4 → NP_848541.2 RNA-binding protein 47 isoform a

See identical proteins and their annotated locations for NP_848541.2

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (a). Variants 1, 2 and 3 all encode isoform a.

Source sequence(s)

AC132284, AK049280, AK085733, AK152971, BY380934, CJ210661, CJ229698

Consensus CDS

CCDS19313.1

UniProtKB/Swiss-Prot

Q3UQC7, Q8BZE8, Q91WT8

Related

ENSMUSP00000144325.2, ENSMUST00000200775.4

Conserved Domains (1) summary

TIGR01648
Location:11 → 590

hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000071.7 Reference GRCm39 C57BL/6J

Range

66173892..66309297 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_030254507.1 → XP_030110367.1 RNA-binding protein 47 isoform X1

UniProtKB/Swiss-Prot

Q3UQC7, Q8BZE8, Q91WT8

Conserved Domains (1) summary

TIGR01648
Location:11 → 590

hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
XM_006503962.1 → XP_006504025.1 RNA-binding protein 47 isoform X2

See identical proteins and their annotated locations for XP_006504025.1

UniProtKB/TrEMBL

D3YXZ5

Conserved Domains (1) summary

TIGR01648
Location:11 → 521

hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
XM_006503956.2 → XP_006504019.1 RNA-binding protein 47 isoform X1

See identical proteins and their annotated locations for XP_006504019.1

UniProtKB/Swiss-Prot

Q3UQC7, Q8BZE8, Q91WT8

Related

ENSMUSP00000092349.3, ENSMUST00000094757.9

Conserved Domains (1) summary

TIGR01648
Location:11 → 590

hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family