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    Ssbp4 single stranded DNA binding protein 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 364534, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Ssbp4provided by RGD
    Official Full Name
    single stranded DNA binding protein 4provided by RGD
    Primary source
    RGD:1359619
    See related
    EnsemblRapid:ENSRNOG00000019698 AllianceGenome:RGD:1359619
    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
    Summary
    Predicted to enable single-stranded DNA binding activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Orthologous to human SSBP4 (single stranded DNA binding protein 4). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 99.1), Brain (RPKM 95.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ssbp4 in Genome Data Viewer
    Location:
    16p14
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 16 NC_086034.1 (18862007..18872917)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 16 NC_051351.1 (18828014..18838941)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (20578111..20589295)

    Chromosome 16 - NC_086034.1Genomic Context describing neighboring genes Neighboring gene pyroglutamyl-peptidase I Neighboring gene Mk1 protein Neighboring gene growth differentiation factor 15 Neighboring gene leucine rich repeat containing 25 Neighboring gene inositol-3-phosphate synthase 1 Neighboring gene elongation factor for RNA polymerase II

    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. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    2. 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 single-stranded DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    single-stranded DNA-binding protein 4

    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_001014236.2 → NP_001014258.2  single-stranded DNA-binding protein 4

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000016
      UniProtKB/TrEMBL
      A6KA22, Q6AY89
      Related
      ENSRNOP00000079858.2, ENSRNOT00000113905.2
      Conserved Domains (2) summary
      smart00667
      Location:17 → 43
      LisH; Lissencephaly type-1-like homology motif
      pfam04503
      Location:81 → 339
      SSDP; Single-stranded DNA binding protein, SSDP

    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_086034.1 Reference GRCr8

      Range
      18862007..18872917
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039094713.2 → XP_038950641.1  single-stranded DNA-binding protein 4 isoform X1

      UniProtKB/TrEMBL
      Q6AY89
      Conserved Domains (2) summary
      smart00667
      Location:17 → 43
      LisH; Lissencephaly type-1-like homology motif
      pfam04503
      Location:81 → 367
      SSDP; Single-stranded DNA binding protein, SSDP

    2. XM_039094714.2 → XP_038950642.1  single-stranded DNA-binding protein 4 isoform X2

      UniProtKB/TrEMBL
      Q6AY89
      Related
      ENSRNOP00000026713.5, ENSRNOT00000026713.5
      Conserved Domains (2) summary
      smart00667
      Location:17 → 43
      LisH; Lissencephaly type-1-like homology motif
      pfam04503
      Location:81 → 367
      SSDP; Single-stranded DNA binding protein, SSDP

    3. XM_039094716.2 → XP_038950644.1  single-stranded DNA-binding protein 4 isoform X3

      UniProtKB/TrEMBL
      G3V8L4, Q6AY89
      Conserved Domains (2) summary
      smart00667
      Location:17 → 43
      LisH; Lissencephaly type-1-like homology motif
      pfam04503
      Location:81 → 339
      SSDP; Single-stranded DNA binding protein, SSDP

    4. XM_063275590.1 → XP_063131660.1  single-stranded DNA-binding protein 4 isoform X5

      UniProtKB/TrEMBL
      A6KA24

    5. XM_063275589.1 → XP_063131659.1  single-stranded DNA-binding protein 4 isoform X4

      UniProtKB/TrEMBL
      A6KA24

    RNA

    1. XR_005494649.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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