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RBM6 RNA binding motif protein 6 [ Homo sapiens (human) ]

Gene ID: 10180, updated on 7-Jun-2020

Summary

Official Symbol
RBM6provided by HGNC
Official Full Name
RNA binding motif protein 6provided by HGNC
Primary source
HGNC:HGNC:9903
See related
Ensembl:ENSG00000004534 MIM:606886
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
3G2; g16; DEF3; DEF-3; HLC-11; NY-LU-12
Expression
Ubiquitous expression in endometrium (RPKM 33.9), lymph node (RPKM 31.2) and 25 other tissues See more
Orthologs

Genomic context

See RBM6 in Genome Data Viewer
Location:
3p21.31
Exon count:
26
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 3 NC_000003.12 (49940041..50077249)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (49977474..50114685)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102724438 Neighboring gene macrophage stimulating 1 receptor Neighboring gene MON1 homolog A, secretory trafficking associated Neighboring gene RBM5 antisense RNA 1 Neighboring gene RNA binding motif protein 5 Neighboring gene SEMA3F antisense RNA 1 Neighboring gene basic proline-rich protein-like Neighboring gene semaphorin 3F

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

Phenotypes

NHGRI GWAS Catalog

Description
Parent-of-origin-specific allelic associations among 106 genomic loci for age at menarche.
NHGRI GWA Catalog
Thirty new loci for age at menarche identified by a meta-analysis of genome-wide association studies.
NHGRI GWA Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ36517, FLJ39446, FLJ42036, DKFZp686B0877

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding TAS
Traceable Author Statement
more info
PubMed 
RNA binding HDA PubMed 
RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
RNA processing TAS
Traceable Author Statement
more info
PubMed 
mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
RNA-binding protein 6
Names
RNA-binding protein DEF-3
lung cancer antigen NY-LU-12
lung cancer protooncogene 11

NCBI Reference Sequences (RefSeq)

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_001167582.2NP_001161054.1  RNA-binding protein 6 isoform 2

    See identical proteins and their annotated locations for NP_001161054.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks several internal exons in the CDS, as compared to variant 1. This results in a downstream in-frame AUG start codon, and the resulting isoform (2) has a shorter N-terminus, as compared to isoform 1. Variants 2, 3, 4, 5, and 6 all encode the same isoform (2).
    Source sequence(s)
    AK291719, BC012112, BC046643
    Consensus CDS
    CCDS54586.1
    UniProtKB/Swiss-Prot
    P78332
    UniProtKB/TrEMBL
    A8K6Q4
    Related
    ENSP00000393530.1, ENST00000442092.5
    Conserved Domains (3) summary
    cd12563
    Location:132218
    RRM2_RBM6; RNA recognition motif 2 in vertebrate RNA-binding protein 6 (RBM6)
    cd16163
    Location:244303
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:529573
    G-patch; G-patch domain
  2. NM_001349190.2NP_001336119.1  RNA-binding protein 6 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3), as well as variants 2, 4, 5, and 6, encodes isoform 2.
    Source sequence(s)
    AC104450, AC105935
    Consensus CDS
    CCDS54586.1
    Related
    ENSP00000392939.1, ENST00000422955.5
    Conserved Domains (3) summary
    cd12563
    Location:132218
    RRM2_RBM6; RNA recognition motif 2 in vertebrate RNA-binding protein 6 (RBM6)
    cd16163
    Location:244303
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:529573
    G-patch; G-patch domain
  3. NM_001349191.2NP_001336120.1  RNA-binding protein 6 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4), as well as variants 2, 3, 5, and 6, encodes isoform 2.
    Source sequence(s)
    AC104450, AC105935
    Consensus CDS
    CCDS54586.1
    Conserved Domains (3) summary
    cd12563
    Location:132218
    RRM2_RBM6; RNA recognition motif 2 in vertebrate RNA-binding protein 6 (RBM6)
    cd16163
    Location:244303
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:529573
    G-patch; G-patch domain
  4. NM_001349192.2NP_001336121.1  RNA-binding protein 6 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5), as well as variants 2, 3, 4, and 6, encodes isoform 2.
    Source sequence(s)
    AC104450, AC105935
    Consensus CDS
    CCDS54586.1
    Conserved Domains (3) summary
    cd12563
    Location:132218
    RRM2_RBM6; RNA recognition motif 2 in vertebrate RNA-binding protein 6 (RBM6)
    cd16163
    Location:244303
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:529573
    G-patch; G-patch domain
  5. NM_001349193.2NP_001336122.1  RNA-binding protein 6 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6), as well as variants 2, 3, 4, and 5, encodes isoform 2.
    Source sequence(s)
    AC104450, AC105935
    Consensus CDS
    CCDS54586.1
    Conserved Domains (3) summary
    cd12563
    Location:132218
    RRM2_RBM6; RNA recognition motif 2 in vertebrate RNA-binding protein 6 (RBM6)
    cd16163
    Location:244303
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:529573
    G-patch; G-patch domain
  6. NM_001349194.2NP_001336123.1  RNA-binding protein 6 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC104450, AC105935
    Conserved Domains (4) summary
    cd12563
    Location:140226
    RRM2_RBM6; RNA recognition motif 2 in vertebrate RNA-binding protein 6 (RBM6)
    cd16163
    Location:252311
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:537581
    G-patch; G-patch domain
    cl17169
    Location:119
    RRM_SF; RNA recognition motif (RRM) superfamily
  7. NM_005777.3NP_005768.1  RNA-binding protein 6 isoform 1

    See identical proteins and their annotated locations for NP_005768.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AF091264, AK291719, BC012112
    Consensus CDS
    CCDS2809.1
    UniProtKB/Swiss-Prot
    P78332
    UniProtKB/TrEMBL
    A8K6Q4
    Related
    ENSP00000266022.4, ENST00000266022.9
    Conserved Domains (5) summary
    smart00443
    Location:10491095
    G_patch; glycine rich nucleic binding domain
    COG1357
    Location:92237
    YjbI; Uncharacterized protein YjbI, contains pentapeptide repeats [Function unknown]
    cd12314
    Location:456533
    RRM1_RBM6; RNA recognition motif 1 in vertebrate RNA-binding protein 6 (RBM6)
    cd12563
    Location:654740
    RRM2_RBM6; RNA recognition motif 2 in vertebrate RNA-binding protein 6 (RBM6)
    cd16163
    Location:766825
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins

RNA

  1. NR_146071.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC104450, AK298108, BC012112
    Related
    ENST00000419610.5

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p13 Primary Assembly

    Range
    49940041..50077249
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005264784.1XP_005264841.1  RNA-binding protein 6 isoform X1

    See identical proteins and their annotated locations for XP_005264841.1

    UniProtKB/TrEMBL
    E9PGM9
    Related
    ENSP00000396466.1, ENST00000443081.5
    Conserved Domains (5) summary
    smart00443
    Location:917963
    G_patch; glycine rich nucleic binding domain
    COG1357
    Location:11127
    YjbI; Uncharacterized protein YjbI, contains pentapeptide repeats [Function unknown]
    cd12314
    Location:324401
    RRM1_RBM6; RNA recognition motif 1 in vertebrate RNA-binding protein 6 (RBM6)
    cd12563
    Location:522608
    RRM2_RBM6; RNA recognition motif 2 in vertebrate RNA-binding protein 6 (RBM6)
    cd16163
    Location:634693
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
  2. XM_017005501.2XP_016860990.1  RNA-binding protein 6 isoform X5

    UniProtKB/Swiss-Prot
    P78332
    Conserved Domains (3) summary
    cd12563
    Location:132218
    RRM2_RBM6; RNA recognition motif 2 in vertebrate RNA-binding protein 6 (RBM6)
    cd16163
    Location:244303
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:529573
    G-patch; G-patch domain
  3. XM_017005500.2XP_016860989.1  RNA-binding protein 6 isoform X5

    UniProtKB/Swiss-Prot
    P78332
    Conserved Domains (3) summary
    cd12563
    Location:132218
    RRM2_RBM6; RNA recognition motif 2 in vertebrate RNA-binding protein 6 (RBM6)
    cd16163
    Location:244303
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:529573
    G-patch; G-patch domain
  4. XM_005264785.1XP_005264842.1  RNA-binding protein 6 isoform X3

    Conserved Domains (4) summary
    smart00443
    Location:568614
    G_patch; glycine rich nucleic binding domain
    cd12563
    Location:173259
    RRM2_RBM6; RNA recognition motif 2 in vertebrate RNA-binding protein 6 (RBM6)
    cd16163
    Location:285344
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    cl17169
    Location:152
    RRM_SF; RNA recognition motif (RRM) superfamily
  5. XM_006712916.1XP_006712979.1  RNA-binding protein 6 isoform X1

    See identical proteins and their annotated locations for XP_006712979.1

    UniProtKB/TrEMBL
    E9PGM9
    Conserved Domains (5) summary
    smart00443
    Location:917963
    G_patch; glycine rich nucleic binding domain
    COG1357
    Location:11127
    YjbI; Uncharacterized protein YjbI, contains pentapeptide repeats [Function unknown]
    cd12314
    Location:324401
    RRM1_RBM6; RNA recognition motif 1 in vertebrate RNA-binding protein 6 (RBM6)
    cd12563
    Location:522608
    RRM2_RBM6; RNA recognition motif 2 in vertebrate RNA-binding protein 6 (RBM6)
    cd16163
    Location:634693
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
  6. XM_017005496.2XP_016860985.2  RNA-binding protein 6 isoform X2

    Conserved Domains (3) summary
    COG1357
    Location:92237
    YjbI; Uncharacterized protein YjbI, contains pentapeptide repeats [Function unknown]
    cd12314
    Location:456533
    RRM1_RBM6; RNA recognition motif 1 in vertebrate RNA-binding protein 6 (RBM6)
    cd12563
    Location:654740
    RRM2_RBM6; RNA recognition motif 2 in vertebrate RNA-binding protein 6 (RBM6)
  7. XM_024453288.1XP_024309056.1  RNA-binding protein 6 isoform X5

    Conserved Domains (3) summary
    cd12563
    Location:132218
    RRM2_RBM6; RNA recognition motif 2 in vertebrate RNA-binding protein 6 (RBM6)
    cd16163
    Location:244303
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:529573
    G-patch; G-patch domain
  8. XM_017005502.1XP_016860991.1  RNA-binding protein 6 isoform X5

    UniProtKB/Swiss-Prot
    P78332
    Conserved Domains (3) summary
    cd12563
    Location:132218
    RRM2_RBM6; RNA recognition motif 2 in vertebrate RNA-binding protein 6 (RBM6)
    cd16163
    Location:244303
    OCRE_RBM6; OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins
    pfam01585
    Location:529573
    G-patch; G-patch domain
  9. XM_017005497.1XP_016860986.1  RNA-binding protein 6 isoform X4

RNA

  1. XR_001739975.2 RNA Sequence

    Related
    ENST00000454079.5
  2. XR_002959486.1 RNA Sequence

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