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Rbm6 RNA binding motif protein 6 [ Mus musculus (house mouse) ]

Gene ID: 19654, updated on 11-Nov-2024

Summary

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Official Symbol
Rbm6provided by MGI
Official Full Name
RNA binding motif protein 6provided by MGI
Primary source
MGI:MGI:1338037
See related
Ensembl:ENSMUSG00000032582 AllianceGenome:MGI:1338037
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
g16; Def-3; NY-LU-12; mKIAA4015; 4930506F14Rik
Summary
Predicted to enable RNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Located in nucleus. Is expressed in several structures, including brain; genitourinary system; liver; lung; and spleen. Orthologous to human RBM6 (RNA binding motif protein 6). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Broad expression in CNS E11.5 (RPKM 17.5), CNS E14 (RPKM 14.4) and 22 other tissues See more
Orthologs
human all
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Genomic context

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See Rbm6 in Genome Data Viewer
Location:
9; 9 F1
Exon count:
25
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (107650758..107751028, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (107773559..107873358, complement)

Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:107637781-107637982 Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:107638598-107638781 Neighboring gene predicted gene, 34605 Neighboring gene RNA binding motif protein 5 Neighboring gene STARR-seq mESC enhancer starr_25188 Neighboring gene STARR-positive B cell enhancer ABC_E6802 Neighboring gene MON1 homolog A, secretory traffciking associated Neighboring gene predicted gene, 23856

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data 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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Related articles in PubMed

  1. DEF-3(g16/NY-LU-12), an RNA binding protein from the 3p21.3 homozygous deletion region in SCLC. Drabkin HA, et al. Oncogene, 1999 Apr 22. PMID 10353602
  2. Assignment of the murine def-3 gene (Rbm6) to chromosome 9F1-F2 and its pseudogenes Rbm6-ps1 and Rbm6-ps2 to chromosome 1 by in situ hybridisation. Heng YM, et al. Cytogenet Cell Genet, 2000. PMID 10965133
  3. Def-2, -3, -6 and -8, novel mouse genes differentially expressed in the haemopoietic system. Hotfilder M, et al. Br J Haematol, 1999 Aug. PMID 10460589
  4. Large-scale identification of mammalian proteins localized to nuclear sub-compartments. Sutherland HG, et al. Hum Mol Genet, 2001 Sep 1. PMID 11555636
  5. A genome-wide in situ hybridization map of RNA-binding proteins reveals anatomically restricted expression in the developing mouse brain. McKee AE, et al. BMC Dev Biol, 2005 Jul 20. PMID 16033648, Free PMC Article

See all (23) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. rbm6 (def-3) maps to mouse chromosome 9F1-F2 two pseudogenes of def-3 map both to mouse chromosome 1
    Title: Assignment of the murine def-3 gene (Rbm6) to chromosome 9F1-F2 and its pseudogenes Rbm6-ps1 and Rbm6-ps2 to chromosome 1 by in situ hybridisation.
  2. rbm6 (def-3) defines a novel RNA-binding protein family
    Title: DEF-3(g16/NY-LU-12), an RNA binding protein from the 3p21.3 homozygous deletion region in SCLC.
  3. rbm6 (def-3) was identified in a retroviral gene-trap screen
    Title: Def-2, -3, -6 and -8, novel mouse genes differentially expressed in the haemopoietic system.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (4) 

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • KIAA4015

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
RNA-binding protein 6

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_011251.3 → NP_035381.2  RNA-binding protein 6 isoform a

    See identical proteins and their annotated locations for NP_035381.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the shorter transcript yet it encodes the longer protein (isoform a).
    Source sequence(s)
    AK145612, BY380685, CJ155377
    Consensus CDS
    CCDS59749.1
    UniProtKB/TrEMBL
    O88720, S4R1W5
    Related
    ENSMUSP00000138400.2, ENSMUST00000183032.8
    Conserved Domains (5) summary
    cd16163
    Location:763 → 828
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:1046 → 1079
    G-patch; G-patch domain
    pfam13599
    Location:173 → 235
    Pentapeptide_4; Pentapeptide repeats (9 copies)
    cd12314
    Location:456 → 533
    RRM1_RBM6; RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding protein 6 (RBM6)
    cd12563
    Location:651 → 737
    RRM2_RBM6; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 6 (RBM6)

  2. NM_029169.3 → NP_083445.1  RNA-binding protein 6 isoform b

    See identical proteins and their annotated locations for NP_083445.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses a different splice site in the 5' end and uses a downstream start codon, compared to variant 1. Isoform b has a shorter N-terminus, compared to isoform a.
    Source sequence(s)
    AK145612, BY380685, CJ155377
    Consensus CDS
    CCDS23507.1
    UniProtKB/TrEMBL
    Q3ULB0
    Related
    ENSMUSP00000035201.6, ENSMUST00000035201.13
    Conserved Domains (5) summary
    cd16163
    Location:631 → 696
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:914 → 947
    G-patch; G-patch domain
    pfam13599
    Location:41 → 103
    Pentapeptide_4; Pentapeptide repeats (9 copies)
    cd12563
    Location:519 → 605
    RRM2_RBM6; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 6 (RBM6)
    cl17169
    Location:324 → 401
    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
    107650758..107751028 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006511651.5 → XP_006511714.1  RNA-binding protein 6 isoform X6

    See identical proteins and their annotated locations for XP_006511714.1

    Conserved Domains (3) summary
    cd16163
    Location:241 → 306
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:524 → 557
    G-patch; G-patch domain
    cd12563
    Location:129 → 215
    RRM2_RBM6; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 6 (RBM6)

  2. XM_036154729.1 → XP_036010622.1  RNA-binding protein 6 isoform X6

    Conserved Domains (3) summary
    cd16163
    Location:241 → 306
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:524 → 557
    G-patch; G-patch domain
    cd12563
    Location:129 → 215
    RRM2_RBM6; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 6 (RBM6)

  3. XM_006511650.5 → XP_006511713.1  RNA-binding protein 6 isoform X1

    See identical proteins and their annotated locations for XP_006511713.1

    UniProtKB/TrEMBL
    O88720, S4R1W5
    Conserved Domains (5) summary
    cd16163
    Location:763 → 828
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:1046 → 1079
    G-patch; G-patch domain
    pfam13599
    Location:173 → 235
    Pentapeptide_4; Pentapeptide repeats (9 copies)
    cd12314
    Location:456 → 533
    RRM1_RBM6; RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding protein 6 (RBM6)
    cd12563
    Location:651 → 737
    RRM2_RBM6; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 6 (RBM6)

  4. XM_030244144.2 → XP_030100004.1  RNA-binding protein 6 isoform X6

    Conserved Domains (3) summary
    cd16163
    Location:241 → 306
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:524 → 557
    G-patch; G-patch domain
    cd12563
    Location:129 → 215
    RRM2_RBM6; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 6 (RBM6)

  5. XM_036154726.1 → XP_036010619.1  RNA-binding protein 6 isoform X2

    UniProtKB/TrEMBL
    Q3ULB0
    Conserved Domains (5) summary
    cd16163
    Location:631 → 696
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:914 → 947
    G-patch; G-patch domain
    pfam13599
    Location:41 → 103
    Pentapeptide_4; Pentapeptide repeats (9 copies)
    cd12563
    Location:519 → 605
    RRM2_RBM6; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 6 (RBM6)
    cl17169
    Location:324 → 401
    RRM_SF; RNA recognition motif (RRM) superfamily

  6. XM_017313216.2 → XP_017168705.1  RNA-binding protein 6 isoform X2

    UniProtKB/TrEMBL
    Q3ULB0
    Conserved Domains (5) summary
    cd16163
    Location:631 → 696
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:914 → 947
    G-patch; G-patch domain
    pfam13599
    Location:41 → 103
    Pentapeptide_4; Pentapeptide repeats (9 copies)
    cd12563
    Location:519 → 605
    RRM2_RBM6; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 6 (RBM6)
    cl17169
    Location:324 → 401
    RRM_SF; RNA recognition motif (RRM) superfamily

  7. XM_036154725.1 → XP_036010618.1  RNA-binding protein 6 isoform X1

    UniProtKB/TrEMBL
    O88720, S4R1W5
    Conserved Domains (5) summary
    cd16163
    Location:763 → 828
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:1046 → 1079
    G-patch; G-patch domain
    pfam13599
    Location:173 → 235
    Pentapeptide_4; Pentapeptide repeats (9 copies)
    cd12314
    Location:456 → 533
    RRM1_RBM6; RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding protein 6 (RBM6)
    cd12563
    Location:651 → 737
    RRM2_RBM6; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 6 (RBM6)

  8. XM_011242860.3 → XP_011241162.1  RNA-binding protein 6 isoform X6

    See identical proteins and their annotated locations for XP_011241162.1

    Conserved Domains (3) summary
    cd16163
    Location:241 → 306
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:524 → 557
    G-patch; G-patch domain
    cd12563
    Location:129 → 215
    RRM2_RBM6; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 6 (RBM6)

  9. XM_030244143.2 → XP_030100003.1  RNA-binding protein 6 isoform X4

    Conserved Domains (4) summary
    cd12563
    Location:166 → 252
    RRM2_RBM6; RNA recognition motif 2 in vertebrate RNA-binding protein 6 (RBM6)
    cd16163
    Location:278 → 343
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:561 → 594
    G-patch; G-patch domain
    cl17169
    Location:10 → 48
    RRM_SF; RNA recognition motif (RRM) superfamily

  10. XM_036154728.1 → XP_036010621.1  RNA-binding protein 6 isoform X5

    Conserved Domains (3) summary
    cd16163
    Location:245 → 310
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:528 → 561
    G-patch; G-patch domain
    cd12563
    Location:133 → 219
    RRM2_RBM6; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 6 (RBM6)

  11. XM_036154730.1 → XP_036010623.1  RNA-binding protein 6 isoform X6

    Conserved Domains (3) summary
    cd16163
    Location:241 → 306
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:524 → 557
    G-patch; G-patch domain
    cd12563
    Location:129 → 215
    RRM2_RBM6; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 6 (RBM6)

  12. XM_006511653.3 → XP_006511716.1  RNA-binding protein 6 isoform X6

    See identical proteins and their annotated locations for XP_006511716.1

    Conserved Domains (3) summary
    cd16163
    Location:241 → 306
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:524 → 557
    G-patch; G-patch domain
    cd12563
    Location:129 → 215
    RRM2_RBM6; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 6 (RBM6)

  13. XM_036154727.1 → XP_036010620.1  RNA-binding protein 6 isoform X3

    Conserved Domains (3) summary
    pfam13599
    Location:173 → 235
    Pentapeptide_4; Pentapeptide repeats (9 copies)
    cd12314
    Location:456 → 533
    RRM1_RBM6; RNA recognition motif 1 (RRM1) found in vertebrate RNA-binding protein 6 (RBM6)
    cd12563
    Location:651 → 737
    RRM2_RBM6; RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 6 (RBM6)
Nucleotide Protein Strain
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