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    Srbd1 S1 RNA binding domain 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 301665, updated on 17-Aug-2024

    Summary

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    Official Symbol
    Srbd1provided by RGD
    Official Full Name
    S1 RNA binding domain 1provided by RGD
    Primary source
    RGD:1562788
    See related
    EnsemblRapid:ENSRNOG00000014720 AllianceGenome:RGD:1562788
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1562788
    Summary
    Predicted to enable mRNA binding activity. Predicted to be a structural constituent of ribosome. Predicted to be involved in translation. Orthologous to human SRBD1 (S1 RNA binding domain 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 153.9), Spleen (RPKM 119.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Srbd1 in Genome Data Viewer
    Location:
    6q12
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (14226551..14417494)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (8473591..8664544)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (9266559..9459212, complement)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120093190 Neighboring gene uncharacterized LOC102551445 Neighboring gene uncharacterized LOC102551210 Neighboring gene uncharacterized LOC120103470

    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. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables structural constituent of ribosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in nucleobase-containing compound metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in translation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    S1 RNA-binding domain-containing protein 1

    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_001399769.1 → NP_001386698.1  S1 RNA-binding domain-containing protein 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000006
      UniProtKB/TrEMBL
      A0A8I6GLE9

    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_086024.1 Reference GRCr8

      Range
      14226551..14417494
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039113056.2 → XP_038968984.1  S1 RNA-binding domain-containing protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A8I6GLE9
      Related
      ENSRNOP00000102267.1, ENSRNOT00000144704.1
      Conserved Domains (1) summary
      COG2183
      Location:203 → 977
      Tex; Transcriptional accessory protein Tex/SPT6 [Transcription]

    2. XM_006239708.4 → XP_006239770.1  S1 RNA-binding domain-containing protein 1 isoform X1

      See identical proteins and their annotated locations for XP_006239770.1

      UniProtKB/TrEMBL
      A0A8I6GLE9, D4A9B0
      Related
      ENSRNOP00000019895.7, ENSRNOT00000019894.9
      Conserved Domains (5) summary
      COG2183
      Location:206 → 980
      Tex; Transcriptional accessory protein Tex/SPT6 [Transcription]
      cd05685
      Location:907 → 978
      S1_Tex; S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression. ...
      pfam09371
      Location:215 → 410
      Tex_N; Tex-like protein N-terminal domain
      pfam12836
      Location:701 → 763
      HHH_3; Helix-hairpin-helix motif
      pfam16921
      Location:534 → 659
      Tex_YqgF; Tex protein YqgF-like domain

    3. XM_039113059.2 → XP_038968987.1  S1 RNA-binding domain-containing protein 1 isoform X5

      Conserved Domains (1) summary
      COG2183
      Location:206 → 620
      Tex; Transcriptional accessory protein Tex/SPT6 [Transcription]

    4. XM_039113057.2 → XP_038968985.1  S1 RNA-binding domain-containing protein 1 isoform X3

      UniProtKB/TrEMBL
      A6H9G1
      Conserved Domains (1) summary
      COG2183
      Location:206 → 824
      Tex; Transcriptional accessory protein Tex/SPT6 [Transcription]

    5. XM_039113058.1 → XP_038968986.1  S1 RNA-binding domain-containing protein 1 isoform X4

      Conserved Domains (1) summary
      COG2183
      Location:6 → 668
      Tex; Transcriptional accessory protein Tex/SPT6 [Transcription]
    Nucleotide Protein Strain
    Heading Accession and Version

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