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

Gene ID: 207181, updated on 11-Apr-2024

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
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Genomic context

See Rbms3 in Genome Data Viewer
Location:
9 F3; 9 68.78 cM
Exon count:
30
Annotation release Status Assembly Chr Location
RS_2024_02 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_000075.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_25427 Neighboring gene STARR-seq mESC enhancer starr_25433 Neighboring gene predicted gene, 31559 Neighboring gene STARR-seq mESC enhancer starr_25435 Neighboring gene predicted gene, 39449 Neighboring gene STARR-seq mESC enhancer starr_25437 Neighboring gene STARR-seq mESC enhancer starr_25439 Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:117063131-117063298 Neighboring gene STARR-seq mESC enhancer starr_25440 Neighboring gene crumbs homolog 1 pseudogene Neighboring gene VISTA enhancer mm1697 Neighboring gene STARR-seq mESC enhancer starr_25441 Neighboring gene predicted gene, 39452 Neighboring gene STARR-seq mESC enhancer starr_25443 Neighboring gene STARR-seq mESC enhancer starr_25444 Neighboring gene predicted gene, 17396 Neighboring gene STARR-seq mESC enhancer starr_25445 Neighboring gene predicted gene, 39451 Neighboring gene STARR-seq mESC enhancer starr_25446 Neighboring gene STARR-seq mESC enhancer starr_25447 Neighboring gene STARR-seq mESC enhancer starr_25448 Neighboring gene STARR-seq mESC enhancer starr_25449 Neighboring gene predicted gene, 39450 Neighboring gene STARR-seq mESC enhancer starr_25450 Neighboring gene predicted gene, 26614 Neighboring gene predicted gene, 50606 Neighboring gene STARR-positive B cell enhancer ABC_E3864 Neighboring gene STARR-positive B cell enhancer ABC_E2921 Neighboring gene STARR-positive B cell enhancer mm9_chr9:117962449-117962749 Neighboring gene zinc finger, CW type with PWWP domain 2 Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:118059288-118059397 Neighboring gene 5-azacytidine induced gene 2 Neighboring gene predicted gene, 17399 Neighboring gene C-X9-C motif containing 1

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (2) 

Pathways from PubChem

General gene information

Markers

Clone Names

  • MGC118437

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
 
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
 
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
 
enables poly(U) RNA binding ISO
Inferred from Sequence Orthology
more info
 
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
 
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

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)

  1. NM_001172121.1NP_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/TrEMBL
    A0A6I8MX12
    Related
    ENSMUSP00000131371.3, ENSMUST00000164018.9
    Conserved Domains (2) summary
    cd12475
    Location:183270
    RRM2_RBMS3; RNA recognition motif 2 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
    cl17169
    Location:100183
    RRM_SF; RNA recognition motif (RRM) superfamily
  2. NM_001172122.1NP_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
    Related
    ENSMUSP00000107402.4, ENSMUST00000111772.10
    Conserved Domains (2) summary
    cd12475
    Location:134221
    RRM2_RBMS3; RNA recognition motif 2 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
    cl17169
    Location:51134
    RRM_SF; RNA recognition motif (RRM) superfamily
  3. NM_001172123.1NP_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
    Q2VPR0, Q8BL73, Q8BLW6, Q8BMA7, Q8BMB5, Q8BML0, Q8BMN1, Q8BWL5
    Related
    ENSMUSP00000107403.4, ENSMUST00000111773.10
    Conserved Domains (2) summary
    cd12475
    Location:134221
    RRM2_RBMS3; RNA recognition motif 2 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
    cl17169
    Location:51134
    RRM_SF; RNA recognition motif (RRM) superfamily
  4. NM_001172124.1NP_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
    Related
    ENSMUSP00000133621.2, ENSMUST00000174868.8
    Conserved Domains (2) summary
    cd12472
    Location:52131
    RRM1_RBMS3; RNA recognition motif 1 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
    cd12475
    Location:134221
    RRM2_RBMS3; RNA recognition motif 2 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
  5. NM_001172126.1NP_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/TrEMBL
    Q8BKJ2
    Related
    ENSMUSP00000039706.8, ENSMUST00000044901.14
    Conserved Domains (2) summary
    cd12472
    Location:52131
    RRM1_RBMS3; RNA recognition motif 1 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
    cd12475
    Location:134221
    RRM2_RBMS3; RNA recognition motif 2 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
  6. NM_178660.4NP_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:134221
    RRM2_RBMS3; RNA recognition motif 2 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
    cl17169
    Location:51134
    RRM_SF; RNA recognition motif (RRM) superfamily

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

  1. NC_000075.7 Reference GRCm39 C57BL/6J

    Range
    116401814..117869900 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

    Conserved Domains (2) summary
    cd12475
    Location:151238
    RRM2_RBMS3; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
    cd12472
    Location:69148
    RRM1_RBMS3; RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
  2. XM_017313253.2XP_017168742.1  RNA-binding motif, single-stranded-interacting protein 3 isoform X5

    UniProtKB/TrEMBL
    Q8BKJ2
    Conserved Domains (2) summary
    cd12475
    Location:134221
    RRM2_RBMS3; RNA recognition motif 2 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
    cl17169
    Location:51134
    RRM_SF; RNA recognition motif (RRM) superfamily
  3. XM_017313252.2XP_017168741.1  RNA-binding motif, single-stranded-interacting protein 3 isoform X4

    UniProtKB/TrEMBL
    Q8BKJ2
    Conserved Domains (3) summary
    TIGR01645
    Location:78367
    half-pint; poly-U binding splicing factor, half-pint family
    cd12475
    Location:134221
    RRM2_RBMS3; RNA recognition motif 2 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
    cl17169
    Location:51134
    RRM_SF; RNA recognition motif (RRM) superfamily
  4. XM_017313251.3XP_017168740.1  RNA-binding motif, single-stranded-interacting protein 3 isoform X3

    Conserved Domains (2) summary
    cd12475
    Location:134221
    RRM2_RBMS3; RNA recognition motif 2 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
    cl17169
    Location:51134
    RRM_SF; RNA recognition motif (RRM) superfamily
  5. XM_030244162.2XP_030100022.1  RNA-binding motif, single-stranded-interacting protein 3 isoform X6

    Conserved Domains (2) summary
    cd12475
    Location:100187
    RRM2_RBMS3; RNA recognition motif 2 found in vertebrate RNA-binding motif, single-stranded-interacting protein 3 (RBMS3)
    cl17169
    Location:17100
    RRM_SF; RNA recognition motif (RRM) superfamily
  6. XM_036154758.1XP_036010651.1  RNA-binding motif, single-stranded-interacting protein 3 isoform X2

    Conserved Domains (2) summary
    pfam07496
    Location:1462
    zf-CW; CW-type Zinc Finger
    cl02554
    Location:82155
    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 ...