Mouse Gene Zc3h3 (ENSMUST00000100538.3) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus zinc finger CCCH type containing 3 (Zc3h3), mRNA. (from RefSeq NM_172121)
Gencode Transcript: ENSMUST00000100538.3
Gencode Gene: ENSMUSG00000075600.3
Transcript (Including UTRs)
   Position: mm10 chr15:75,754,430-75,841,915 Size: 87,486 Total Exon Count: 12 Strand: -
Coding Region
   Position: mm10 chr15:75,754,919-75,841,895 Size: 86,977 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel Information
Methods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr15:75,754,430-75,841,915)mRNA (may differ from genome)Protein (950 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedSOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: ZC3H3_MOUSE
DESCRIPTION: RecName: Full=Zinc finger CCCH domain-containing protein 3;
SIMILARITY: Contains 5 C3H1-type zinc fingers.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -3.9020-0.195 Picture PostScript Text
3' UTR -158.20489-0.324 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)

SCOP Domains:
90229 - CCCH zinc finger

ModBase Predicted Comparative 3D Structure on Q8CHP0
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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.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologGenome BrowserNo orthologNo ortholog
Gene Details     
Gene Sorter     
GenBankRGDEnsemblEnsembl  
Protein SequenceProtein Sequence Protein Sequence  
AlignmentAlignment Alignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003674 molecular_function
GO:0003677 DNA binding
GO:0003723 RNA binding
GO:0004521 endoribonuclease activity
GO:0046332 SMAD binding
GO:0046872 metal ion binding
GO:0070412 R-SMAD binding

Biological Process:
GO:0006378 mRNA polyadenylation
GO:0010793 regulation of mRNA export from nucleus
GO:0016973 poly(A)+ mRNA export from nucleus
GO:0031124 mRNA 3'-end processing
GO:0032927 positive regulation of activin receptor signaling pathway
GO:0051028 mRNA transport
GO:0090502 RNA phosphodiester bond hydrolysis, endonucleolytic

Cellular Component:
GO:0005634 nucleus
GO:0005847 mRNA cleavage and polyadenylation specificity factor complex


-  Descriptions from all associated GenBank mRNAs
  BC049953 - Mus musculus zinc finger CCCH type containing 3, mRNA (cDNA clone IMAGE:4167443), partial cds.
AK138281 - Mus musculus adult male hypothalamus cDNA, RIKEN full-length enriched library, clone:A230054N07 product:hypothetical Zn-finger, C-x8-C-x5-C-x3-H type/Serine-rich region profile containing protein, full insert sequence.
BC038813 - Mus musculus zinc finger CCCH type containing 3, mRNA (cDNA clone IMAGE:4235754), containing frame-shift errors.
BC060682 - Mus musculus zinc finger CCCH type containing 3, mRNA (cDNA clone MGC:66637 IMAGE:6416246), complete cds.
AJ516034 - Mus musculus mRNA for hypothetical KIAA0150 protein.
BC111448 - Mus musculus zinc finger CCCH type containing 3, mRNA (cDNA clone IMAGE:40060804), complete cds.
AK191611 - Mus musculus cDNA, clone:Y1G0106G16, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000069044, based on BLAT search.
AK086799 - Mus musculus 0 day neonate lung cDNA, RIKEN full-length enriched library, clone:E030001L16 product:hypothetical protein, full insert sequence.
AK191878 - Mus musculus cDNA, clone:Y1G0107D19, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000069044, based on BLAT search.
AK186212 - Mus musculus cDNA, clone:Y0G0136K03, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000038809, based on BLAT search.
AK193148 - Mus musculus cDNA, clone:Y1G0111D18, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000069044, based on BLAT search.
AK205610 - Mus musculus cDNA, clone:Y2G0102E03, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000069044, based on BLAT search.
AK210610 - Mus musculus cDNA, clone:Y2G0119A02, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000069044, based on BLAT search.

-  Other Names for This Gene
  Alternate Gene Symbols: Kiaa0150, NM_172121, Q80X78, Q8CHP0, uc007whf.1, uc007whf.2, ZC3H3_MOUSE, Zc3hdc3, Zfp623
UCSC ID: uc007whf.2
RefSeq Accession: NM_172121
Protein: Q8CHP0 (aka ZC3H3_MOUSE)
CCDS: CCDS27550.1

-  Gene Model Information
  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.