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Aliases for SARNP Gene

Aliases for SARNP Gene

  • SAP Domain Containing Ribonucleoprotein 2 3 5
  • 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
  • Proliferation-Associated Cytokine-Inducible Protein CIP29 4
  • SAP Domain-Containing Ribonucleoprotein 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 RNA Polymerase II Transcription Termination and Gene Expression. Gene Ontology (GO) annotations related to this gene include nucleic acid 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

Additional gene information for SARNP Gene

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

Genomics for SARNP Gene

GeneHancer (GH) Regulatory Elements for SARNP Gene

Promoters and enhancers for SARNP Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH12I055815 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 550.8 0.0 -26 3.8 HDGF PKNOX1 SMAD1 ARNT ARID4B SIN3A DMAP1 YBX1 ZNF2 IRF4 ORMDL2 SARNP BAZ2A ZC3H10 DNAJC14 RN7SL809P CDK2 STAT2 RDH5 ENSG00000258317
GH12I056266 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 18.6 -449.4 -449438 2 HDGF PKNOX1 MLX ZFP64 ARID4B SIN3A DMAP1 ZNF2 IRF4 YY1 COQ10A GC12M056238 NEMP1 PAN2 BAZ2A PHC1P1 ANKRD52 DNAJC14 SMARCC2 RN7SL809P
GH12I056187 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 18.3 -371.7 -371700 3.5 MLX DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF143 ZNF548 SP3 ZNF610 ENSG00000258199 SMARCC2 GC12P056192 TRS-CGA4-1 NEMP1 ENSG00000257740 IKZF4 ANKRD52 PHC1P1 BAZ2A
GH12I056358 Promoter/Enhancer 2.4 EPDnew FANTOM5 Ensembl ENCODE 10.1 -542.1 -542129 3.3 HDGF PKNOX1 SMAD1 ARNT ARID4B NEUROD1 SIN3A DMAP1 ZNF2 IRF4 STAT2 BAZ2A ZC3H10 NEMP1 DNAJC14 ENSG00000257303 ENSG00000258317 IL23A PAN2 RN7SL809P
GH12I056628 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 9.8 -811.9 -811925 3 HDGF FOXA2 ARNT ARID4B NEUROD1 SIN3A FEZF1 DMAP1 IRF4 YY1 BAZ2A RBMS2 RNU6-343P ANKRD52 IKZF4 PTGES3 NEMP1 ENSG00000257740 SMARCC2 R3HDM2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SARNP on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SARNP gene promoter:

Genomic Locations for SARNP Gene

Genomic Locations for SARNP Gene
chr12:55,752,463-55,817,756
(GRCh38/hg38)
Size:
65,294 bases
Orientation:
Minus strand
chr12:56,146,247-56,211,540
(GRCh37/hg19)

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

Post-translational modifications for SARNP Gene

  • Ubiquitination at isoforms=92 and posLast=135135

Other Protein References for SARNP Gene

No data available for DME Specific Peptides for SARNP Gene

Domains & Families for SARNP Gene

Gene Families for SARNP Gene

Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for SARNP Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for SARNP Gene

Graphical View of Domain Structure for InterPro Entry

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

No data available for UniProtKB/Swiss-Prot 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.

Phenotypes From GWAS Catalog for SARNP Gene

Gene Ontology (GO) - Molecular Function for SARNP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0003723 RNA binding IEA,HDA 22658674
GO:0005515 protein binding IPI 14667819
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

Clone Products

  • Addgene plasmids for SARNP

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
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SARNP gene
Compartment Confidence
nucleus 5
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear speckles (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SARNP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000346 transcription export complex IDA 20844015
GO:0005634 nucleus NAS 11356193
GO:0005654 nucleoplasm TAS --
GO:0016607 nuclear speck IDA 20844015
GO:0036464 cytoplasmic ribonucleoprotein granule IDA --
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:0006369 termination of RNA polymerase II transcription TAS --
GO:0006405 RNA export from nucleus TAS --
GO:0006406 mRNA export from nucleus 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:

Clone Products

  • Addgene plasmids for SARNP

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 from GTEx, Illumina, BioGPS, and CGAP SAGE for SARNP Gene

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



Protein tissue co-expression partners for SARNP Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SARNP Gene:

SARNP

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.

Evidence on tissue expression from TISSUES for SARNP Gene

  • Liver(4.4)
  • Nervous system(4.4)
  • Blood(4.3)
  • Lung(3.1)
  • Heart(2.1)
  • Spleen(2)
genes like me logo Genes that share expression patterns with SARNP: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer 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 33
  • 100 (n)
DNAJC14 34
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia CIP29 34
  • 97 (a)
OneToMany
-- 34
  • 96 (a)
OneToMany
SARNP 33
  • 93.17 (n)
mouse
(Mus musculus)
Mammalia Gm6563 34
  • 96 (a)
OneToMany
Sarnp 33 16 34
  • 89.52 (n)
oppossum
(Monodelphis domestica)
Mammalia SARNP 34
  • 94 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SARNP 33 34
  • 93.17 (n)
rat
(Rattus norvegicus)
Mammalia Sarnp 33
  • 90.48 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia SARNP 34
  • 86 (a)
OneToOne
chicken
(Gallus gallus)
Aves SARNP 33 34
  • 78.15 (n)
lizard
(Anolis carolinensis)
Reptilia SARNP 34
  • 78 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sarnp 33
  • 70.26 (n)
zebrafish
(Danio rerio)
Actinopterygii sarnp 33 34
  • 61.5 (n)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.12479 33
Species where no ortholog for SARNP was found in the sources mined by GeneCards:
  • 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 Variation AA Info Type
rs1000010996 -- 55,753,097(-) C/T genic_downstream_transcript_variant, intron_variant
rs1000013356 -- 55,756,738(-) A/G genic_downstream_transcript_variant, intron_variant
rs1000048594 -- 55,811,796(-) A/G intron_variant
rs1000186822 -- 55,763,426(-) C/T intron_variant
rs1000244053 -- 55,763,825(-) G/A intron_variant

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

Variant ID Type Subtype PubMed ID
nsv832423 CNV gain 17160897
nsv559010 CNV loss 21841781
nsv559004 CNV loss 21841781
nsv507644 OTHER sequence alteration 20534489
nsv476371 CNV novel sequence insertion 20440878
nsv469410 CNV loss 19166990
nsv1145607 CNV deletion 24896259
esv3629588 CNV loss 21293372
esv3334888 CNV insertion 20981092
esv2672374 CNV deletion 23128226
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)

Additional Variant Information for SARNP Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
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
  • hcc
- elite association - COSMIC cancer census association via MalaCards
Search SARNP in MalaCards View complete list of genes associated with diseases

Additional Disease Information for 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 LM (Biochemical and biophysical research communications 2002) 2 3 4 22 58
  2. An integrated approach in the discovery and characterization of a novel nuclear protein over-expressed in liver and pancreatic tumors. (PMID: 11356193) Choong ML … Chung MC (FEBS letters 2001) 2 3 4 58
  3. ATP is required for interactions between UAP56 and two conserved mRNA export proteins, Aly and CIP29, to assemble the TREX complex. (PMID: 20844015) Dufu K … Reed R (Genes & development 2010) 3 4 58
  4. Intracellular characterization of DDX39, a novel growth-associated RNA helicase. (PMID: 17196963) Sugiura T … Nagano Y (Experimental cell research 2007) 3 4 58
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58

Products for SARNP Gene

Sources for SARNP Gene

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