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    Khdrbs3 KH RNA binding domain containing, signal transduction associated 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 64015, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Khdrbs3provided by RGD
    Official Full Name
    KH RNA binding domain containing, signal transduction associated 3provided by RGD
    Primary source
    RGD:620921
    See related
    EnsemblRapid:ENSRNOG00000009539 AllianceGenome:RGD:620921
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Etle; Slm2
    Summary
    Enables single-stranded RNA binding activity. Involved in mRNA processing; regulation of RNA splicing; and spermatogenesis. Located in nucleus. Orthologous to human KHDRBS3 (KH RNA binding domain containing, signal transduction associated 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Brain (RPKM 349.1), Testes (RPKM 143.8) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Khdrbs3 in Genome Data Viewer
    Location:
    7q34
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (102726628..102884545)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (100837707..100995644)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (110031819..110179475)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134479744 Neighboring gene TOX high mobility group box family member 4, pseudogene 1 Neighboring gene uncharacterized LOC108351507 Neighboring gene uncharacterized LOC134479745 Neighboring gene R3H domain containing 2, pseudogene 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. p59(fyn)-mediated phosphorylation regulates the activity of the tissue-specific splicing factor rSLM-1. Stoss O, et al. Mol Cell Neurosci, 2004 Sep. PMID 15345239
    2. SAM68 regulates neuronal activity-dependent alternative splicing of neurexin-1. Iijima T, et al. Cell, 2011 Dec 23. PMID 22196734, Free PMC Article
    3. Rapid and systematic analysis of the RNA recognition specificities of RNA-binding proteins. Ray D, et al. Nat Biotechnol, 2009 Jul. PMID 19561594
    4. Heterogeneous nuclear ribonucleoprotein G regulates splice site selection by binding to CC(A/C)-rich regions in pre-mRNA. Heinrich B, et al. J Biol Chem, 2009 May 22. PMID 19282290, Free PMC Article
    5. The STAR/GSG family protein rSLM-2 regulates the selection of alternative splice sites. Stoss O, et al. J Biol Chem, 2001 Mar 23. PMID 11118435

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables SH3 domain binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables identical protein binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein domain specific binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables single-stranded RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in mRNA processing IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of RNA splicing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of alternative mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of alternative mRNA splicing, via spliceosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in spermatogenesis IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm 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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of protein-containing complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    KH domain-containing, RNA-binding, signal transduction-associated protein 3
    Names
    KH domain containing, RNA binding, signal transduction associated 3
    SLM-2
    etoile, Sam68-like protein SLM-2
    rSLM-2
    sam68-like mammalian protein 2

    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_022249.2 → NP_071585.2  KH domain-containing, RNA-binding, signal transduction-associated protein 3

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000007
      UniProtKB/Swiss-Prot
      Q9JLP1
      UniProtKB/TrEMBL
      A6HRU0, F1LMN8
      Related
      ENSRNOP00000012753.8, ENSRNOT00000012753.9
      Conserved Domains (3) summary
      pfam16274
      Location:4 → 53
      Qua1; Qua1 domain
      pfam16568
      Location:266 → 320
      Sam68-YY; Tyrosine-rich domain of Sam68
      cd22470
      Location:48 → 160
      KH-I_KHDRBS3; type I K homology (KH) RNA-binding domain found in KH domain-containing, RNA-binding, signal transduction-associated protein 3 (KHDRBS3) and similar proteins

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086025.1 Reference GRCr8

      Range
      102726628..102884545
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063264204.1 → XP_063120274.1  KH domain-containing, RNA-binding, signal transduction-associated protein 3 isoform X3

      UniProtKB/TrEMBL
      A0A8I5YBJ1
      Related
      ENSRNOP00000076402.1, ENSRNOT00000112404.2

    2. XM_063264202.1 → XP_063120272.1  KH domain-containing, RNA-binding, signal transduction-associated protein 3 isoform X1

    3. XM_063264203.1 → XP_063120273.1  KH domain-containing, RNA-binding, signal transduction-associated protein 3 isoform X2

    RNA

    1. XR_005486718.2 RNA Sequence

      Related
      ENSRNOT00000097337.2

    2. XR_010053039.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9JLP1.1 GenPept UniProtKB/Swiss-Prot:Q9JLP1

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Other Literature Sources
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