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

Gene ID: 364534, updated on 10-Oct-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, Apr 2022]
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 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

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

RNA

  1. XR_005494649.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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