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SARNP SAP domain containing ribonucleoprotein [ Homo sapiens (human) ]

Gene ID: 84324, updated on 7-Apr-2024

Summary

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Official Symbol
SARNPprovided by HGNC
Official Full Name
SAP domain containing ribonucleoproteinprovided by HGNC
Primary source
HGNC:HGNC:24432
See related
Ensembl:ENSG00000205323 MIM:610049; AllianceGenome:HGNC:24432
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
HCC1; THO1; CIP29; HSPC316
Summary
This gene encodes a protein that is upregulated in response to various cytokines. The encoded protein may play a role in cell cycle progression. A translocation between this gene and the myeloid/lymphoid leukemia gene, resulting in expression of a chimeric protein, has been associated with acute myelomonocytic leukemia. Pseudogenes exist on chromosomes 7 and 8. Alternatively spliced transcript variants have been described. [provided by RefSeq, Feb 2009]
Expression
Ubiquitous expression in testis (RPKM 27.2), endometrium (RPKM 26.0) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
12q13.2
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (55752463..55817724, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (55719098..55784368, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (56146247..56211508, complement)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene BLOC1S1-RDH5 readthrough Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:56114612-56115240 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4535 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:56122619-56123225 Neighboring gene retinol dehydrogenase 5 Neighboring gene CD63 antisense RNA 1 Neighboring gene CD63 molecule Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6459 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4537 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:56140299-56140802 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr12:56140803-56141306 Neighboring gene growth differentiation factor 11 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr12:56192003-56192504 Neighboring gene ORMDL sphingolipid biosynthesis regulator 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4538 Neighboring gene DnaJ heat shock protein family (Hsp40) member C14 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:56223947-56224684 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6460 Neighboring gene transmembrane protein 198B (pseudogene) Neighboring gene matrix metallopeptidase 19

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. A novel partner gene CIP29 containing a SAP domain with MLL identified in infantile myelomonocytic leukemia. Hashii Y, et al. Leukemia, 2004 Sep. PMID 15284855
  2. Identification of apoptotic tyrosine-phosphorylated proteins after etoposide or retinoic acid treatment. Navakauskiene R, et al. Proteomics, 2004 Apr. PMID 15048984
  3. An integrated approach in the discovery and characterization of a novel nuclear protein over-expressed in liver and pancreatic tumors. Choong ML, et al. FEBS Lett, 2001 May 11. PMID 11356193
  4. SARNP, a participant in mRNA splicing and export, negatively regulates E-cadherin expression via interaction with pinin. Kang GJ, et al. J Cell Physiol, 2020 Feb. PMID 31313837
  5. Interactions between KSHV ORF57 and the novel human TREX proteins, CHTOP and CIP29. Schumann S, et al. J Gen Virol, 2016 Aug. PMID 27189710, Free PMC Article

See all (84) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Structural basis for high-order complex of SARNP and DDX39B to facilitate mRNP assembly.
    Title: Structural basis for high-order complex of SARNP and DDX39B to facilitate mRNP assembly.
  2. SARNP, a participant in mRNA splicing and export, negatively regulates E-cadherin expression via interaction with pinin.
    Title: SARNP, a participant in mRNA splicing and export, negatively regulates E-cadherin expression via interaction with pinin.
  3. Herein, the authors extend their previous research and provide evidence that ORF57 of human herpesvirus-8 interacts with CHTOP and CIP29, in contrast to POLDIP3.
    Title: Interactions between KSHV ORF57 and the novel human TREX proteins, CHTOP and CIP29.
  4. CIP29 physically and functionally associates with DDX39, suggesting their cooperation in the RNA metabolism.
    Title: Intracellular characterization of DDX39, a novel growth-associated RNA helicase.
  5. CIP29 appears to be a new cytokine regulated protein involved in normal and cancer cell proliferation.
    Title: Cloning and characterization of a proliferation-associated cytokine-inducible protein, CIP29.
  6. Hcc-1 plays a role in growth regulation and nucleic acids metabolism.
    Title: Hcc-1 is a novel component of the nuclear matrix with growth inhibitory function.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Tat tat SAP domain containing ribonucleoprotein (SARNP) is identified to interact with HIV-1 Tat mutant Nullbasic in HeLa cells by LC MS/MS PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC14726

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA binding HDA PubMed 
enables chromatin binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in mRNA export from nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
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 IDA
Inferred from Direct Assay
more info
  
located_in nuclear speck IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus NAS
Non-traceable Author Statement
more info
 PubMed 
part_of transcription export complex IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
SAP domain-containing ribonucleoprotein
Names
cytokine induced protein 29 kDa
cytokine-induced protein of 29 kDa
hepatocellular carcinoma 1
nuclear protein Hcc-1
proliferation associated cytokine-inducible protein CIP29

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_033082.4 → NP_149073.1  SAP domain-containing ribonucleoprotein

    See identical proteins and their annotated locations for NP_149073.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the shortest transcript and encodes the functional protein.
    Source sequence(s)
    AF161434, BC007099, BI520421
    Consensus CDS
    CCDS8892.1
    UniProtKB/Swiss-Prot
    A8K393, P82979, Q9P066
    UniProtKB/TrEMBL
    F8VZQ9
    Related
    ENSP00000337632.3, ENST00000336133.8
    Conserved Domains (2) summary
    smart00513
    Location:8 → 42
    SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation
    PLN03124
    Location:7 → 90
    PLN03124; poly [ADP-ribose] polymerase; Provisional

RNA

  1. NR_026722.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an internal exon and differs in the 3' region compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK290508, BC093051, BI520421
    Related
    ENST00000552884.5

  2. NR_026723.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 3' region compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK290508, BI520421

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    55752463..55817724 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    55719098..55784368 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P82979.3 GenPept UniProtKB/Swiss-Prot:P82979

Gene LinkOut

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