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Aliases for ZFC3H1 Gene

Aliases for ZFC3H1 Gene

  • Zinc Finger C3H1-Type Containing 2 3 5
  • Coiled-Coil Domain-Containing Protein 131 3 4
  • Proline/Serine-Rich Coiled-Coil Protein 2 3 4
  • Proline/Serine-Rich Coiled-Coil 2 2 3
  • Coiled-Coil Domain Containing 131 2 3
  • CCDC131 3 4
  • PSRC2 3 4
  • Zinc Finger C3H1 Domain-Containing Protein 3
  • KIAA0546 4
  • CSRC2 3

External Ids for ZFC3H1 Gene

Previous HGNC Symbols for ZFC3H1 Gene

  • PSRC2
  • CCDC131

Previous GeneCards Identifiers for ZFC3H1 Gene

  • GC12M070292
  • GC12M072003
  • GC12M069052

Summaries for ZFC3H1 Gene

GeneCards Summary for ZFC3H1 Gene

ZFC3H1 (Zinc Finger C3H1-Type Containing) is a Protein Coding gene.

UniProtKB/Swiss-Prot for ZFC3H1 Gene

  • Subunit of the trimeric poly(A) tail exosome targeting (PAXT) complex, a complex that directs a subset of long and polyadenylated poly(A) RNAs for exosomal degradation. The RNA exosome is fundamental for the degradation of RNA in eukaryotic nuclei. Substrate targeting is facilitated by its cofactor SKIV2L2/MTR4, which links to RNA-binding protein adapters.

Additional gene information for ZFC3H1 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ZFC3H1 Gene

Genomics for ZFC3H1 Gene

GeneHancer (GH) Regulatory Elements for ZFC3H1 Gene

Promoters and enhancers for ZFC3H1 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
GH12I071661 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 550.8 +3.9 3873 4.8 CLOCK DMAP1 YY1 ZNF213 E2F8 ZNF143 SP3 NFYC ZNF610 GLIS1 ZFC3H1 THAP2 TMEM19 ENSG00000257515
GH12I071667 Enhancer 0.3 dbSUPER 550.8 +0.3 277 0.9 ATF2 ZFC3H1 ENSG00000257515 THAP2
GH12I071668 Enhancer 0.2 dbSUPER 550.8 -1.3 -1282 1.3 ZFC3H1 ENSG00000258064 THAP2
GH12I071754 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 31.4 -87.8 -87751 2.8 HDGF CLOCK ARNT ARID4B SIN3A DMAP1 IRF4 YY1 POLR2B E2F8 RAB21 ZFC3H1 TBC1D15 ENSG00000257410
GH12I071838 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 16.4 -172.3 -172257 3.5 PKNOX1 CLOCK FOXA2 MLX ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 TBC1D15 ZFC3H1 MRS2P2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around ZFC3H1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the ZFC3H1 gene promoter:

Genomic Locations for ZFC3H1 Gene

Genomic Locations for ZFC3H1 Gene
chr12:71,609,472-71,667,725
(GRCh38/hg38)
Size:
58,254 bases
Orientation:
Minus strand
chr12:72,003,252-72,061,505
(GRCh37/hg19)

Genomic View for ZFC3H1 Gene

Genes around ZFC3H1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZFC3H1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZFC3H1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZFC3H1 Gene

Proteins for ZFC3H1 Gene

  • Protein details for ZFC3H1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O60293-ZC3H1_HUMAN
    Recommended name:
    Zinc finger C3H1 domain-containing protein
    Protein Accession:
    O60293
    Secondary Accessions:
    • Q6GMU1
    • Q6P2S9
    • Q6ZV36
    • Q96BE7

    Protein attributes for ZFC3H1 Gene

    Size:
    1989 amino acids
    Molecular mass:
    226356 Da
    Quaternary structure:
    • Component of the poly(A) tail exosome targeting (PAXT) complex made of accessory factors, such as PABPN1, ZFC3H1 and SKIV2L2/MTR4, and which directs a subset of long and polyadenylated poly(A) RNAs for exosomal degradation (PubMed:27871484). Co-localizes with component of the CBC-ARS2 (CBCA) complex. Binds to RNA exosome components. Interacts with NCBP1/CBP80, ZC3H18, SKIV2L2/MTR4 and PABPN1 in a RNase-insensitive manner, and with PABPC4, PABPC1 and ZC3H14 in a RNase-sensitive manner (PubMed:27871484).
    SequenceCaution:
    • Sequence=BAA25472.2; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAC86028.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for ZFC3H1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for ZFC3H1 Gene

Post-translational modifications for ZFC3H1 Gene

Other Protein References for ZFC3H1 Gene

No data available for DME Specific Peptides for ZFC3H1 Gene

Domains & Families for ZFC3H1 Gene

Gene Families for ZFC3H1 Gene

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

Suggested Antigen Peptide Sequences for ZFC3H1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with ZFC3H1: view

No data available for UniProtKB/Swiss-Prot for ZFC3H1 Gene

Function for ZFC3H1 Gene

Molecular function for ZFC3H1 Gene

UniProtKB/Swiss-Prot Function:
Subunit of the trimeric poly(A) tail exosome targeting (PAXT) complex, a complex that directs a subset of long and polyadenylated poly(A) RNAs for exosomal degradation. The RNA exosome is fundamental for the degradation of RNA in eukaryotic nuclei. Substrate targeting is facilitated by its cofactor SKIV2L2/MTR4, which links to RNA-binding protein adapters.

Phenotypes From GWAS Catalog for ZFC3H1 Gene

Gene Ontology (GO) - Molecular Function for ZFC3H1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding HDA,IDA 22658674
GO:0005515 protein binding IPI 20195357
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ZFC3H1: view
genes like me logo Genes that share phenotypes with ZFC3H1: view

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ZFC3H1 Gene

Localization for ZFC3H1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZFC3H1 Gene

Nucleus. Note=Excluded from the nucleolus. {ECO:0000269 PubMed:27871484}.

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 ZFC3H1 gene
Compartment Confidence
extracellular 5
nucleus 5
cytoskeleton 2
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Intermediate filaments (2)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for ZFC3H1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000178 exosome (RNase complex) IDA 27871484
GO:0005615 extracellular space HDA,IDA 22664934
GO:0005634 nucleus IDA,IEA 27871484
GO:0005730 NOT nucleolus IDA 27871484
genes like me logo Genes that share ontologies with ZFC3H1: view

Pathways & Interactions for ZFC3H1 Gene

SuperPathways for ZFC3H1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for ZFC3H1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006396 RNA processing IEA --
genes like me logo Genes that share ontologies with ZFC3H1: view

No data available for Pathways by source and SIGNOR curated interactions for ZFC3H1 Gene

Drugs & Compounds for ZFC3H1 Gene

No Compound Related Data Available

Transcripts for ZFC3H1 Gene

Unigene Clusters for ZFC3H1 Gene

Zinc finger, C3H1-type containing:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for ZFC3H1 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11a · 11b · 11c ^ 12a · 12b ^ 13 ^ 14 ^ 15 ^ 16a · 16b ^ 17a · 17b · 17c ^
SP1: -
SP2: -
SP3:
SP4:
SP5: - - - -
SP6: - - -
SP7:
SP8:
SP9: - -
SP10:
SP11:
SP12:

ExUns: 18 ^ 19 ^ 20 ^ 21 ^ 22 ^ 23 ^ 24 ^ 25 ^ 26 ^ 27 ^ 28 ^ 29 ^ 30a · 30b ^ 31a · 31b ^ 32 ^ 33a · 33b · 33c ^ 34a · 34b · 34c ^ 35a · 35b ^ 36 ^
SP1: - - - - -
SP2:
SP3:
SP4: - -
SP5:
SP6:
SP7: -
SP8:
SP9:
SP10:
SP11:
SP12:

ExUns: 37a · 37b
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:

Relevant External Links for ZFC3H1 Gene

GeneLoc Exon Structure for
ZFC3H1
ECgene alternative splicing isoforms for
ZFC3H1

Expression for ZFC3H1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ZFC3H1 Gene

Protein differential expression in normal tissues from HIPED for ZFC3H1 Gene

This gene is overexpressed in Pancreatic juice (27.7) and Lung (19.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for ZFC3H1 Gene



NURSA nuclear receptor signaling pathways regulating expression of ZFC3H1 Gene:

ZFC3H1

SOURCE GeneReport for Unigene cluster for ZFC3H1 Gene:

Hs.527874

Evidence on tissue expression from TISSUES for ZFC3H1 Gene

  • Nervous system(4.3)
  • Liver(4.2)
  • Blood(4.1)
  • Pancreas(2.6)
genes like me logo Genes that share expression patterns with ZFC3H1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for ZFC3H1 Gene

Orthologs for ZFC3H1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for ZFC3H1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ZFC3H1 33 34
  • 99.77 (n)
cow
(Bos Taurus)
Mammalia ZFC3H1 33 34
  • 93.65 (n)
dog
(Canis familiaris)
Mammalia ZFC3H1 33 34
  • 93.04 (n)
rat
(Rattus norvegicus)
Mammalia Zfc3h1 33
  • 88.97 (n)
mouse
(Mus musculus)
Mammalia Zfc3h1 33 16 34
  • 88.78 (n)
oppossum
(Monodelphis domestica)
Mammalia ZFC3H1 34
  • 83 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia ZFC3H1 34
  • 79 (a)
OneToOne
chicken
(Gallus gallus)
Aves ZFC3H1 33 34
  • 74.8 (n)
lizard
(Anolis carolinensis)
Reptilia ZFC3H1 34
  • 69 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia zfc3h1 33
  • 64.83 (n)
Str.235 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.15668 33
zebrafish
(Danio rerio)
Actinopterygii ZFC3H1 34
  • 28 (a)
OneToOne
Species where no ortholog for ZFC3H1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • 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 ZFC3H1 Gene

ENSEMBL:
Gene Tree for ZFC3H1 (if available)
TreeFam:
Gene Tree for ZFC3H1 (if available)

Paralogs for ZFC3H1 Gene

No data available for Paralogs for ZFC3H1 Gene

Variants for ZFC3H1 Gene

Sequence variations from dbSNP and Humsavar for ZFC3H1 Gene

SNP ID Clin Chr 12 pos Variation AA Info Type
rs1000002241 -- 71,645,514(-) T/C/G intron_variant
rs1000034723 -- 71,645,170(-) T/C intron_variant
rs1000047184 -- 71,629,814(-) T/C intron_variant
rs1000055415 -- 71,640,194(-) G/C intron_variant
rs1000066041 -- 71,619,478(-) AAAAAAA/AAAAAAAA intron_variant

Structural Variations from Database of Genomic Variants (DGV) for ZFC3H1 Gene

Variant ID Type Subtype PubMed ID
nsv832451 CNV loss 17160897

Variation tolerance for ZFC3H1 Gene

Residual Variation Intolerance Score: 1.51% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.89; 59.18% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ZFC3H1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
ZFC3H1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZFC3H1 Gene

Disorders for ZFC3H1 Gene

Additional Disease Information for ZFC3H1

No disorders were found for ZFC3H1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ZFC3H1 Gene

Publications for ZFC3H1 Gene

  1. Prediction of the coding sequences of unidentified human genes. IX. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. (PMID: 9628581) Nagase T … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 1998) 2 3 4 58
  2. Identification of a Nuclear Exosome Decay Pathway for Processed Transcripts. (PMID: 27871484) Meola N … Jensen TH (Molecular cell 2016) 3 4 58
  3. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  4. Integrative analysis of kinase networks in TRAIL-induced apoptosis provides a source of potential targets for combination therapy. (PMID: 25852190) So J … Colwill K (Science signaling 2015) 3 58
  5. SR protein kinases promote splicing of nonconsensus introns. (PMID: 26167880) Lipp JJ … Guthrie C (Nature structural & molecular biology 2015) 3 58

Products for ZFC3H1 Gene

Sources for ZFC3H1 Gene

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