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

Gene ID: 64015, updated on 27-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
  • 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

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