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Aliases for SARNP Gene

Aliases for SARNP Gene

  • SAP Domain Containing Ribonucleoprotein 2 3 5
  • Proliferation-Associated Cytokine-Inducible Protein CIP29 3 4
  • Cytokine-Induced Protein Of 29 KDa 3 4
  • Cytokine Induced Protein 29 KDa 2 3
  • Hepatocellular Carcinoma 1 2 3
  • Nuclear Protein Hcc-1 3 4
  • HCC1 3 4
  • Proliferation Associated Cytokine-Inducible Protein CIP29 3
  • HSPC316 3
  • CIP29 3
  • THO1 3

External Ids for SARNP Gene

Previous GeneCards Identifiers for SARNP Gene

  • GC12M054442
  • GC12M056146
  • GC12M053185

Summaries for SARNP Gene

Entrez Gene Summary for SARNP Gene

  • 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]

GeneCards Summary for SARNP Gene

SARNP (SAP Domain Containing Ribonucleoprotein) is a Protein Coding gene. Diseases associated with SARNP include hepatocellular carcinoma. Among its related pathways are Gene Expression and Transport of Mature Transcript to Cytoplasm. GO annotations related to this gene include nucleic acid binding and poly(A) RNA binding.

UniProtKB/Swiss-Prot for SARNP Gene

  • Binds both single-stranded and double-stranded DNA with higher affinity for the single-stranded form. Specifically binds to scaffold/matrix attachment region DNA. Also binds single-stranded RNA. Enhances RNA unwinding activity of DDX39A. May participate in important transcriptional or translational control of cell growth, metabolism and carcinogenesis. Component of the TREX complex which is thought to couple mRNA transcription, processing and nuclear export, and specifically associates with spliced mRNA and not with unspliced pre-mRNA. TREX is recruited to spliced mRNAs by a transcription-independent mechanism, binds to mRNA upstream of the exon-junction complex (EJC) and is recruited in a splicing- and cap-dependent manner to a region near the 5 end of the mRNA where it functions in mRNA export to the cytoplasm via the TAP/NFX1 pathway. The TREX complex is essential for the export of Kaposis sarcoma-associated herpesvirus (KSHV) intronless mRNAs and infectious virus production.

Gene Wiki entry for SARNP Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SARNP Gene

Genomics for SARNP Gene

Regulatory Elements for SARNP Gene

Promoters for SARNP Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around SARNP on UCSC Golden Path with GeneCards custom track

Genomic Location for SARNP Gene

Chromosome:
12
Start:
55,752,463 bp from pter
End:
55,817,756 bp from pter
Size:
65,294 bases
Orientation:
Minus strand

Genomic View for SARNP Gene

Genes around SARNP on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SARNP Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SARNP Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SARNP Gene

Proteins for SARNP Gene

  • Protein details for SARNP Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P82979-SARNP_HUMAN
    Recommended name:
    SAP domain-containing ribonucleoprotein
    Protein Accession:
    P82979
    Secondary Accessions:
    • A8K393
    • Q9P066

    Protein attributes for SARNP Gene

    Size:
    210 amino acids
    Molecular mass:
    23671 Da
    Quaternary structure:
    • Interacts with DDX39A. Interacts with FUS. Component of the transcription/export (TREX) complex at least composed of ALYREF/THOC4, DDX39B, SARNP/CIP29, CHTOP and the THO subcomplex; TREX seems to have dynamic structure involving ATP-dependent remodeling; in the complex interacts directly with DDX39B in a ATP-dependent manner which bridges it to ALYREF/THOC4.
    SequenceCaution:
    • Sequence=AAF28994.1; Type=Frameshift; Positions=134, 149; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for SARNP Gene

neXtProt entry for SARNP Gene

Proteomics data for SARNP Gene at MOPED

Post-translational modifications for SARNP Gene

  • Ubiquitination at Lys 92 and Lys 135
  • Modification sites at PhosphoSitePlus

Other Protein References for SARNP Gene

Antibody Products

No data available for DME Specific Peptides for SARNP Gene

Domains & Families for SARNP Gene

Protein Domains for SARNP Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for SARNP Gene

Graphical View of Domain Structure for InterPro Entry

P82979

UniProtKB/Swiss-Prot:

SARNP_HUMAN :
  • Contains 1 SAP domain.
Domain:
  • Contains 1 SAP domain.
genes like me logo Genes that share domains with SARNP: view

No data available for Gene Families for SARNP Gene

Function for SARNP Gene

Molecular function for SARNP Gene

UniProtKB/Swiss-Prot Function:
Binds both single-stranded and double-stranded DNA with higher affinity for the single-stranded form. Specifically binds to scaffold/matrix attachment region DNA. Also binds single-stranded RNA. Enhances RNA unwinding activity of DDX39A. May participate in important transcriptional or translational control of cell growth, metabolism and carcinogenesis. Component of the TREX complex which is thought to couple mRNA transcription, processing and nuclear export, and specifically associates with spliced mRNA and not with unspliced pre-mRNA. TREX is recruited to spliced mRNAs by a transcription-independent mechanism, binds to mRNA upstream of the exon-junction complex (EJC) and is recruited in a splicing- and cap-dependent manner to a region near the 5 end of the mRNA where it functions in mRNA export to the cytoplasm via the TAP/NFX1 pathway. The TREX complex is essential for the export of Kaposis sarcoma-associated herpesvirus (KSHV) intronless mRNAs and infectious virus production.
UniProtKB/Swiss-Prot Induction:
By EPO/erythropoietin.

Gene Ontology (GO) - Molecular Function for SARNP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
genes like me logo Genes that share ontologies with SARNP: view
genes like me logo Genes that share phenotypes with SARNP: view

Animal Models for SARNP Gene

MGI Knock Outs for SARNP:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for SARNP Gene

Localization for SARNP Gene

Subcellular locations from UniProtKB/Swiss-Prot for SARNP Gene

Nucleus. Nucleus speckle.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SARNP Gene COMPARTMENTS Subcellular localization image for SARNP gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for SARNP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm IDA,TAS --
genes like me logo Genes that share ontologies with SARNP: view

Pathways & Interactions for SARNP Gene

genes like me logo Genes that share pathways with SARNP: view

Gene Ontology (GO) - Biological Process for SARNP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006406 mRNA export from nucleus IDA,TAS --
genes like me logo Genes that share ontologies with SARNP: view

No data available for SIGNOR curated interactions for SARNP Gene

Drugs & Compounds for SARNP Gene

No Compound Related Data Available

Transcripts for SARNP Gene

Unigene Clusters for SARNP Gene

SAP domain containing ribonucleoprotein:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SARNP Gene

No ASD Table

Relevant External Links for SARNP Gene

GeneLoc Exon Structure for
SARNP
ECgene alternative splicing isoforms for
SARNP

Expression for SARNP Gene

mRNA expression in normal human tissues for SARNP Gene

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for SARNP Gene



SOURCE GeneReport for Unigene cluster for SARNP Gene Hs.505676

mRNA Expression by UniProt/SwissProt for SARNP Gene

P82979-SARNP_HUMAN
Tissue specificity: Low expression in spleen, liver, pancreas, testis, thymus, heart, and kidney. Increased levels are seen in hepatocellular carcinoma and pancreatic adenocarcinoma.
genes like me logo Genes that share expression patterns with SARNP: view

Protein tissue co-expression partners for SARNP Gene

- Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Protein differential expression in normal tissues for SARNP Gene

Orthologs for SARNP Gene

This gene was present in the common ancestor of chordates.

Orthologs for SARNP Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SARNP 35
  • 100 (n)
  • 100 (a)
DNAJC14 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia -- 36
  • 96 (a)
OneToMany
CIP29 36
  • 97 (a)
OneToMany
SARNP 35
  • 93.17 (n)
  • 97.14 (a)
dog
(Canis familiaris)
Mammalia SARNP 35
  • 93.17 (n)
  • 96.67 (a)
SARNP 36
  • 92 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Sarnp 16
Sarnp 35
  • 89.52 (n)
  • 95.71 (a)
Gm6563 36
  • 96 (a)
OneToMany
Sarnp 36
  • 96 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia SARNP 36
  • 94 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SARNP 36
  • 86 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Sarnp 35
  • 90.48 (n)
  • 96.67 (a)
chicken
(Gallus gallus)
Aves SARNP 35
  • 78.15 (n)
  • 85.17 (a)
SARNP 36
  • 81 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SARNP 36
  • 78 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sarnp 35
  • 70.26 (n)
  • 75.49 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.12479 35
zebrafish
(Danio rerio)
Actinopterygii sarnp 36
  • 61 (a)
OneToOne
sarnp 35
  • 61.5 (n)
  • 61.5 (a)
Species with no ortholog for SARNP:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for SARNP Gene

ENSEMBL:
Gene Tree for SARNP (if available)
TreeFam:
Gene Tree for SARNP (if available)

Paralogs for SARNP Gene

(2) SIMAP similar genes for SARNP Gene using alignment to 3 proteins:

Pseudogenes.org Pseudogenes for SARNP Gene

genes like me logo Genes that share paralogs with SARNP: view

No data available for Paralogs for SARNP Gene

Variants for SARNP Gene

Sequence variations from dbSNP and Humsavar for SARNP Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
rs705709 -- 55,772,483(-) AGGAG(G/T)GGGGG intron-variant
rs812230 -- 55,780,705(+) catca(C/T)tactc intron-variant
rs772259 -- 55,784,371(+) CGCTA(A/C/T)GTAGC intron-variant
rs772260 -- 55,784,632(-) TTTAT(C/G)AGACC intron-variant
rs772261 -- 55,780,362(+) ggcag(A/G)agaat intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SARNP Gene

Variant ID Type Subtype PubMed ID
nsv832423 CNV Gain 17160897
nsv469410 CNV Loss 19166990
esv2672374 CNV Deletion 23128226
nsv507644 CNV Insertion 20534489
esv22731 CNV Loss 19812545

Variation tolerance for SARNP Gene

Residual Variation Intolerance Score: 33.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.95; 19.64% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SARNP Gene

HapMap Linkage Disequilibrium report
SARNP

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SARNP Gene

Disorders for SARNP Gene

MalaCards: The human disease database

(1) MalaCards diseases for SARNP Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
hepatocellular carcinoma
  • hepatocellular carcinoma, somatic
- elite association - COSMIC cancer census association via MalaCards
Search SARNP in MalaCards View complete list of genes associated with diseases

Relevant External Links for SARNP

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SARNP
genes like me logo Genes that share disorders with SARNP: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SARNP Gene

Publications for SARNP Gene

  1. Cloning and characterization of a proliferation-associated cytokine- inducible protein, CIP29. (PMID: 11922608) Fukuda S. … Pelus L.M. (Biochem. Biophys. Res. Commun. 2002) 2 3 4 23 67
  2. An integrated approach in the discovery and characterization of a novel nuclear protein over-expressed in liver and pancreatic tumors. (PMID: 11356193) Choong M.L. … Chung M.C.M. (FEBS Lett. 2001) 2 3
  3. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  4. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T. … Vidal M. (Cell 2014) 3
  5. A HIV-1 Tat mutant protein disrupts HIV-1 Rev function by targeting the DEAD-box RNA helicase DDX1. (PMID: 25496916) Lin M.H. … Harrich D. (Retrovirology 2014) 3

Products for SARNP Gene

Sources for SARNP Gene

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