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

    Gene ID: 19654, updated on 27-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
    • 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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