Format

Send to:

Choose Destination
    • Showing Current items.

    Khdrbs2 KH RNA binding domain containing, signal transduction associated 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 170843, updated on 19-Apr-2019

    Summary

    Official Symbol
    Khdrbs2provided by RGD
    Official Full Name
    KH RNA binding domain containing, signal transduction associated 2provided by RGD
    Primary source
    RGD:621738
    See related
    Ensembl:ENSRNOG00000012284
    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
    Slm1
    Summary
    mouse homolog binds RNA, also binds SH2 and SH3 domain containing proteins; is tyrosine phosphorylated by Src and may act as a Src adapter protein during mitosis [RGD, Feb 2006]
    Expression
    Biased expression in Brain (RPKM 36.8) and Testes (RPKM 10.6) See more
    Orthologs

    Genomic context

    See Khdrbs2 in Genome Data Viewer
    Location:
    9q21
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (39501431..40008707, complement)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 9 NC_005108.3 (39171658..39679421, complement)

    Chromosome 9 - NC_005108.4Genomic Context describing neighboring genes Neighboring gene similar to pigpen Neighboring gene similar to zinc finger protein 622 Neighboring gene elongation factor 1-alpha 1-like Neighboring gene similar to ubiquitin-conjugating enzyme E2 variant 1

    Genomic regions, transcripts, and products

    Expression

    • 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

    Pathways from BioSystems

    General gene information

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    SH2 domain binding IEA
    Inferred from Electronic Annotation
    more info
     
    SH2 domain binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    SH3 domain binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    SH3 domain binding IEA
    Inferred from Electronic Annotation
    more info
     
    SH3 domain binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    identical protein binding IEA
    Inferred from Electronic Annotation
    more info
     
    identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    poly(A) binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    poly(A) binding IEA
    Inferred from Electronic Annotation
    more info
     
    poly(A) binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    poly(U) RNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    poly(U) RNA binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protein heterodimerization activity IEA
    Inferred from Electronic Annotation
    more info
     
    protein heterodimerization activity ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    Process Evidence Code Pubs
    mRNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    regulation of mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    regulation of mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
     
    regulation of mRNA splicing, via spliceosome ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    Component Evidence Code Pubs
    nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nucleus IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    KH domain-containing, RNA-binding, signal transduction-associated protein 2
    Names
    KH domain containing, RNA binding, signal transduction associated 2
    SLM-1
    Sam68-like mammalian protein 1
    rSLM-1

    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_133318.1NP_579852.1  KH domain-containing, RNA-binding, signal transduction-associated protein 2

      See identical proteins and their annotated locations for NP_579852.1

      Status: PROVISIONAL

      Source sequence(s)
      AF305618
      UniProtKB/Swiss-Prot
      Q920F3
      Related
      ENSRNOP00000016579.3, ENSRNOT00000016578.5
      Conserved Domains (3) summary
      cd02395
      Location:61180
      SF1_like-KH; Splicing factor 1 (SF1) K homology RNA-binding domain (KH). Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 ...
      pfam16274
      Location:657
      Qua1; Qua1 domain
      pfam16568
      Location:271321
      Sam68-YY; Tyrosine-rich domain of Sam68

    RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

    Reference Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005108.4 Reference Rnor_6.0 Primary Assembly

      Range
      39501431..40008707 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    RNA

    1. XR_001839640.1 RNA Sequence

    2. XR_001839639.1 RNA Sequence

    Alternate Rn_Celera

    Genomic

    1. AC_000077.1 Alternate Rn_Celera

      Range
      32245972..32715211
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Support Center