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Sarnp SAP domain containing ribonucleoprotein [ Rattus norvegicus (Norway rat) ]

Gene ID: 362819, updated on 2-Nov-2024

Summary

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Official Symbol
Sarnpprovided by RGD
Official Full Name
SAP domain containing ribonucleoproteinprovided by RGD
Primary source
RGD:1305692
See related
EnsemblRapid:ENSRNOG00000030520 AllianceGenome:RGD:1305692
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
Cip29; RGD1305692
Summary
Predicted to enable chromatin binding activity. Predicted to be involved in poly(A)+ mRNA export from nucleus. Predicted to act upstream of or within negative regulation of transcription by RNA polymerase II. Predicted to be located in cytoplasmic ribonucleoprotein granule and nuclear speck. Predicted to be part of transcription export complex. Predicted to be active in nucleus. Orthologous to human SARNP (SAP domain containing ribonucleoprotein). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Thymus (RPKM 123.4), Adrenal (RPKM 104.2) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Sarnp in Genome Data Viewer
Location:
7q11
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (1835597..1889833)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (1251096..1305335)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (3246220..3300467)

Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene transmembrane protein 198b Neighboring gene DnaJ heat shock protein family (Hsp40) member C14 Neighboring gene ORMDL sphingolipid biosynthesis regulator 2 Neighboring gene growth differentiation factor 11 Neighboring gene Cd63 molecule Neighboring gene retinol dehydrogenase 5

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. ATP is required for interactions between UAP56 and two conserved mRNA export proteins, Aly and CIP29, to assemble the TREX complex. Dufu K, et al. Genes Dev, 2010 Sep 15. PMID 20844015, Free PMC Article
  2. mRNA export and the TREX complex. Katahira J. Biochim Biophys Acta, 2012 Jun. PMID 22178508
  3. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
  4. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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General gene information

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Markers

Homology

Clone Names

  • MGC112623

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables chromatin binding IEA
Inferred from Electronic Annotation
more info
  
enables chromatin binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
involved_in mRNA export from nucleus IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA export from nucleus ISO
Inferred from Sequence Orthology
more info
  
involved_in mRNA export from nucleus ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in negative regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in poly(A)+ mRNA export from nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of translation IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in cytoplasmic ribonucleoprotein granule IEA
Inferred from Electronic Annotation
more info
  
located_in cytoplasmic ribonucleoprotein granule ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear speck IEA
Inferred from Electronic Annotation
more info
  
located_in nuclear speck ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear speck ISS
Inferred from Sequence or Structural Similarity
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
part_of transcription export complex IEA
Inferred from Electronic Annotation
more info
  
part_of transcription export complex ISO
Inferred from Sequence Orthology
more info
  
part_of transcription export complex ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
SAP domain-containing ribonucleoprotein
Names
cytokine induced protein 29 kDa
nuclear protein Hcc-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_001033070.1 → NP_001028242.1  SAP domain-containing ribonucleoprotein

    See identical proteins and their annotated locations for NP_001028242.1

    Status: PROVISIONAL

    Source sequence(s)
    BC100070
    UniProtKB/Swiss-Prot
    Q498U4
    UniProtKB/TrEMBL
    A0A8I6AC55, A6KSJ8
    Related
    ENSRNOP00000083779.2, ENSRNOT00000096123.2
    Conserved Domains (2) summary
    pfam02037
    Location:8 → 42
    SAP; SAP domain
    pfam06884
    Location:170 → 205
    DUF1264; Protein of unknown function (DUF1264)

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
    1835597..1889833
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006240781.5 → XP_006240843.1  SAP domain-containing ribonucleoprotein isoform X1

    UniProtKB/TrEMBL
    A6KSJ6
    Conserved Domains (2) summary
    pfam02037
    Location:8 → 42
    SAP; SAP domain
    pfam06884
    Location:147 → 182
    DUF1264; Protein of unknown function (DUF1264)

  2. XM_008765031.4 → XP_008763253.1  SAP domain-containing ribonucleoprotein isoform X2

    UniProtKB/TrEMBL
    A6KSJ6
    Conserved Domains (1) summary
    pfam02037
    Location:8 → 42
    SAP; SAP domain

  3. XM_063263713.1 → XP_063119783.1  SAP domain-containing ribonucleoprotein isoform X3

    UniProtKB/TrEMBL
    A0A8I5ZWH1, A6KSK0
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q498U4.3 GenPept UniProtKB/Swiss-Prot:Q498U4

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