Human Gene ZC3H10 (uc001sjp.1) Description and Page Index
  Description: Homo sapiens zinc finger CCCH-type containing 10 (ZC3H10), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr12:56,512,030-56,516,278 Size: 4,249 Total Exon Count: 3 Strand: +
Coding Region
   Position: hg19 chr12:56,514,347-56,515,651 Size: 1,305 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:56,512,030-56,516,278)mRNA (may differ from genome)Protein (434 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtPubMedStanford SOURCETreefamUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: ZC3HA_HUMAN
DESCRIPTION: RecName: Full=Zinc finger CCCH domain-containing protein 10;
INTERACTION: P54253:ATXN1; NbExp=3; IntAct=EBI-742550, EBI-930964;
SIMILARITY: Contains 3 C3H1-type zinc fingers.

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): ZC3H10
CDC HuGE Published Literature: ZC3H10
Positive Disease Associations: Scleroderma, Systemic
Related Studies:
  1. Scleroderma, Systemic
    Olga Gorlova et al. PLoS genetics 2011, Identification of novel genetic markers associated with clinical phenotypes of systemic sclerosis through a genome-wide association strategy., PLoS genetics. [PubMed 21779181]

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 15.40 RPKM in Testis
Total median expression: 221.40 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -62.60189-0.331 Picture PostScript Text
3' UTR -252.10627-0.402 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000571 - Znf_CCCH

Pfam Domains:
PF00642 - Zinc finger C-x8-C-x5-C-x3-H type (and similar)
PF14608 - RNA-binding, Nab2-type zinc finger

ModBase Predicted Comparative 3D Structure on Q96K80
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0005515 protein binding
GO:0035198 miRNA binding
GO:0046872 metal ion binding

Biological Process:
GO:0010608 posttranscriptional regulation of gene expression
GO:1903799 negative regulation of production of miRNAs involved in gene silencing by miRNA

Cellular Component:
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  AK027357 - Homo sapiens cDNA FLJ14451 fis, clone HEMBB1001834.
BC018708 - Homo sapiens zinc finger CCCH-type containing 10, mRNA (cDNA clone MGC:31767 IMAGE:4111500), complete cds.
JD061819 - Sequence 42843 from Patent EP1572962.
CU676284 - Synthetic construct Homo sapiens gateway clone IMAGE:100019380 5' read ZC3H10 mRNA.
AB464750 - Synthetic construct DNA, clone: pF1KB8828, Homo sapiens ZC3H10 gene for zinc finger CCCH-type containing protein 10, without stop codon, in Flexi system.
EU832703 - Synthetic construct Homo sapiens clone HAIB:100067732; DKFZo004C1032 zinc finger CCCH-type containing 10 protein (ZC3H10) gene, encodes complete protein.
KJ899838 - Synthetic construct Homo sapiens clone ccsbBroadEn_09232 ZC3H10 gene, encodes complete protein.
EU832628 - Synthetic construct Homo sapiens clone HAIB:100067657; DKFZo008C1031 zinc finger CCCH-type containing 10 protein (ZC3H10) gene, encodes complete protein.
DQ597135 - Homo sapiens piRNA piR-35201, complete sequence.
DQ600932 - Homo sapiens piRNA piR-38998, complete sequence.
DQ594336 - Homo sapiens piRNA piR-60448, complete sequence.
DQ574889 - Homo sapiens piRNA piR-43001, complete sequence.
DQ584230 - Homo sapiens piRNA piR-51342, complete sequence.
JD416141 - Sequence 397165 from Patent EP1572962.
JD044523 - Sequence 25547 from Patent EP1572962.
DQ583603 - Homo sapiens piRNA piR-50715, complete sequence.
JD180952 - Sequence 161976 from Patent EP1572962.
JD214364 - Sequence 195388 from Patent EP1572962.
JD143662 - Sequence 124686 from Patent EP1572962.
JD038464 - Sequence 19488 from Patent EP1572962.
JD231580 - Sequence 212604 from Patent EP1572962.
JD223332 - Sequence 204356 from Patent EP1572962.
JD492625 - Sequence 473649 from Patent EP1572962.
JD559732 - Sequence 540756 from Patent EP1572962.
JD160144 - Sequence 141168 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: NM_032786, NP_116175, Q96K80, ZC3HA_HUMAN, ZC3HDC10
UCSC ID: uc001sjp.1
RefSeq Accession: NM_032786
Protein: Q96K80 (aka ZC3HA_HUMAN)
CCDS: CCDS8903.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_032786.1
exon count: 3CDS single in 3' UTR: no RNA size: 2121
ORF size: 1305CDS single in intron: no Alignment % ID: 99.91
txCdsPredict score: 2768.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.