Human Gene ZC3H12D (uc010kid.3) Description and Page Index
  Description: Homo sapiens zinc finger CCCH-type containing 12D (ZC3H12D), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr6:149,768,766-149,806,148 Size: 37,383 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chr6:149,771,819-149,795,679 Size: 23,861 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsMalaCardsCTDGene 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 (chr6:149,768,766-149,806,148)mRNA (may differ from genome)Protein (527 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCHPRDLynxMGIneXtProt
OMIMPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: ZC12D_HUMAN
DESCRIPTION: RecName: Full=Probable ribonuclease ZC3H12D; EC=3.1.-.-; AltName: Full=MCP-induced protein 4; AltName: Full=Transformed follicular lymphoma; AltName: Full=Zinc finger CCCH domain-containing protein 12D; AltName: Full=p34;
FUNCTION: May regulate cell growth likely by suppressing RB1 phosphorylation. May function as RNase and regulate the levels of target RNA species (Potential). Serve as a tumor suppressor in certain leukemia cells. Overexpression inhibits the G1 to S phase progression through suppression of RB1 phosphorylation.
COFACTOR: Magnesium (Potential).
SUBCELLULAR LOCATION: Isoform 1: Cytoplasm. Note=Localized as discrete granules. Colocalized with mRNA-processing body markers, EIF2C2 and DCP1A, but not with a stress granule maker, TIA1, in the cytoplasm.
SUBCELLULAR LOCATION: Isoform 3: Cytoplasm. Nucleus.
TISSUE SPECIFICITY: Expressed in normal human lymphocytes but defective in some leukemia/lymphoma cell lines.
INDUCTION: By prolonged exposure to bacterial lipopolysaccharides (LPS) in acute monocytic leukemia cell line THP-1 cells.
DISEASE: Note=A chromosomal aberration involving ZC3H12D may be the cause of the transformation of follicular lymphoma (FL) to diffuse large B-cell lymphoma (DLBCL). Translocation t(2;6)(p12;q25) with IGK. Resulting protein may not be expressed.
SIMILARITY: Belongs to the ZC3H12 family.
SIMILARITY: Contains 1 C3H1-type zinc finger.

-  MalaCards Disease Associations
  MalaCards Gene Search: ZC3H12D
Diseases sorted by gene-association score: follicular lymphoma (16), lymphoma (9), diffuse large b-cell lymphoma (4), periodic limb movement disorder (2), patellofemoral pain syndrome (1)

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

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 9.37 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 29.54 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 -118.11270-0.437 Picture PostScript Text
3' UTR -1325.763053-0.434 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
IPR021869 - RNase_Zc3h12
IPR000571 - Znf_CCCH

Pfam Domains:
PF11977 - Zc3h12a-like Ribonuclease NYN domain
PF14608 - RNA-binding, Nab2-type zinc finger

ModBase Predicted Comparative 3D Structure on A2A288
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:0004518 nuclease activity
GO:0004519 endonuclease activity
GO:0005515 protein binding
GO:0016787 hydrolase activity
GO:0046872 metal ion binding

Biological Process:
GO:0030308 negative regulation of cell growth
GO:0061158 3'-UTR-mediated mRNA destabilization
GO:0090305 nucleic acid phosphodiester bond hydrolysis
GO:2000134 negative regulation of G1/S transition of mitotic cell cycle

Cellular Component:
GO:0000932 P-body
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0036464 cytoplasmic ribonucleoprotein granule


-  Descriptions from all associated GenBank mRNAs
  AB458221 - Homo sapiens TFL mRNA for tumor suppressor P58TFL, complete cds.
AB458222 - Homo sapiens TFL mRNA for tumor suppressor P36TFL, complete cds.
AK090441 - Homo sapiens mRNA for FLJ00361 protein.
JD433629 - Sequence 414653 from Patent EP1572962.
AK127932 - Homo sapiens cDNA FLJ46041 fis, clone SPLEN2036608.
JD235180 - Sequence 216204 from Patent EP1572962.
JD561807 - Sequence 542831 from Patent EP1572962.
JD254971 - Sequence 235995 from Patent EP1572962.
JD053926 - Sequence 34950 from Patent EP1572962.
JD364203 - Sequence 345227 from Patent EP1572962.
JD203783 - Sequence 184807 from Patent EP1572962.
JD516649 - Sequence 497673 from Patent EP1572962.
JD247245 - Sequence 228269 from Patent EP1572962.
JD432405 - Sequence 413429 from Patent EP1572962.
JD541876 - Sequence 522900 from Patent EP1572962.
JD357417 - Sequence 338441 from Patent EP1572962.
JD409882 - Sequence 390906 from Patent EP1572962.
JD439348 - Sequence 420372 from Patent EP1572962.
JD037941 - Sequence 18965 from Patent EP1572962.
JD225318 - Sequence 206342 from Patent EP1572962.
JD345553 - Sequence 326577 from Patent EP1572962.
JD398703 - Sequence 379727 from Patent EP1572962.
JD119165 - Sequence 100189 from Patent EP1572962.
JD252502 - Sequence 233526 from Patent EP1572962.
JD213372 - Sequence 194396 from Patent EP1572962.
JD076852 - Sequence 57876 from Patent EP1572962.
JD108775 - Sequence 89799 from Patent EP1572962.
JD515386 - Sequence 496410 from Patent EP1572962.
JD084741 - Sequence 65765 from Patent EP1572962.
JD465935 - Sequence 446959 from Patent EP1572962.
JD107947 - Sequence 88971 from Patent EP1572962.
JD388897 - Sequence 369921 from Patent EP1572962.
JD321278 - Sequence 302302 from Patent EP1572962.
JD485504 - Sequence 466528 from Patent EP1572962.
JD082844 - Sequence 63868 from Patent EP1572962.
JD551829 - Sequence 532853 from Patent EP1572962.
JD104489 - Sequence 85513 from Patent EP1572962.
JD074623 - Sequence 55647 from Patent EP1572962.
JD038614 - Sequence 19638 from Patent EP1572962.
JD081957 - Sequence 62981 from Patent EP1572962.
JD474619 - Sequence 455643 from Patent EP1572962.
JD211924 - Sequence 192948 from Patent EP1572962.
JD240788 - Sequence 221812 from Patent EP1572962.
JD291535 - Sequence 272559 from Patent EP1572962.
JD490286 - Sequence 471310 from Patent EP1572962.
JD190401 - Sequence 171425 from Patent EP1572962.
JD506237 - Sequence 487261 from Patent EP1572962.
JD424954 - Sequence 405978 from Patent EP1572962.
JD070403 - Sequence 51427 from Patent EP1572962.
JD255484 - Sequence 236508 from Patent EP1572962.
JD156190 - Sequence 137214 from Patent EP1572962.
JD349445 - Sequence 330469 from Patent EP1572962.
JD325912 - Sequence 306936 from Patent EP1572962.
JD366447 - Sequence 347471 from Patent EP1572962.
JD366448 - Sequence 347472 from Patent EP1572962.
JD155872 - Sequence 136896 from Patent EP1572962.
JD105909 - Sequence 86933 from Patent EP1572962.
JD117256 - Sequence 98280 from Patent EP1572962.
JD517601 - Sequence 498625 from Patent EP1572962.
JD105908 - Sequence 86932 from Patent EP1572962.
JD447284 - Sequence 428308 from Patent EP1572962.
JD283304 - Sequence 264328 from Patent EP1572962.
JD112265 - Sequence 93289 from Patent EP1572962.
JD497111 - Sequence 478135 from Patent EP1572962.
JD112264 - Sequence 93288 from Patent EP1572962.
JD504218 - Sequence 485242 from Patent EP1572962.
JD240507 - Sequence 221531 from Patent EP1572962.
JD411920 - Sequence 392944 from Patent EP1572962.
JD417677 - Sequence 398701 from Patent EP1572962.
JD289610 - Sequence 270634 from Patent EP1572962.
JD324170 - Sequence 305194 from Patent EP1572962.
JD524121 - Sequence 505145 from Patent EP1572962.
JD050261 - Sequence 31285 from Patent EP1572962.
JD097123 - Sequence 78147 from Patent EP1572962.
JD384707 - Sequence 365731 from Patent EP1572962.
JD321399 - Sequence 302423 from Patent EP1572962.
JD057575 - Sequence 38599 from Patent EP1572962.
JD217126 - Sequence 198150 from Patent EP1572962.
JD228995 - Sequence 210019 from Patent EP1572962.
JD438809 - Sequence 419833 from Patent EP1572962.
BC157832 - Homo sapiens zinc finger CCCH-type containing 12D, mRNA (cDNA clone MGC:189727 IMAGE:9057051), complete cds.
JD539837 - Sequence 520861 from Patent EP1572962.
JD249655 - Sequence 230679 from Patent EP1572962.
BC127762 - Homo sapiens zinc finger CCCH-type containing 12D, mRNA (cDNA clone MGC:157873 IMAGE:40127431), complete cds.
KJ904201 - Synthetic construct Homo sapiens clone ccsbBroadEn_13595 ZC3H12D gene, encodes complete protein.

-  Other Names for This Gene
  Alternate Gene Symbols: A1L178, A2A288, B2RXF4, B7WNU7, B9ZZP9, B9ZZQ0, C6orf95, MCPIP4, NM_207360, NP_997243, Q6ZRW2, TFL, ZC12D_HUMAN
UCSC ID: uc010kid.3
RefSeq Accession: NM_207360
Protein: A2A288 (aka ZC12D_HUMAN)

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_207360.2
exon count: 6CDS single in 3' UTR: no RNA size: 4907
ORF size: 1584CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3305.00frame 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.