Human Gene ZNF438 (uc010qea.2)
  Description: Homo sapiens zinc finger protein 438 (ZNF438), transcript variant 4, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr10:31,133,565-31,320,866 Size: 187,302 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg19 chr10:31,133,890-31,165,963 Size: 32,074 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr10:31,133,565-31,320,866)mRNA (may differ from genome)Protein (828 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsH-INV
HGNCHPRDLynxMGIneXtProtPubMed
UniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: ZN438_HUMAN
DESCRIPTION: RecName: Full=Zinc finger protein 438;
FUNCTION: May be involved in transcriptional regulation.
SUBCELLULAR LOCATION: Nucleus (Probable).
SIMILARITY: Belongs to the krueppel C2H2-type zinc-finger protein family.
SIMILARITY: Contains 4 C2H2-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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): ZNF438
CDC HuGE Published Literature: ZNF438
Positive Disease Associations: Body Height , Body Weights and Measures , Clozapine
Related Studies:
  1. Body Height
    , , . [PubMed 0]
  2. Body Weights and Measures
    Caroline S Fox et al. BMC medical genetics 2007, Genome-wide association to body mass index and waist circumference: the Framingham Heart Study 100K project., BMC medical genetics. [PubMed 17903300]
    Adiposity traits are associated with SNPs on the Affymetrix 100K SNP GeneChip. Replication of these initial findings is necessary. These data will serve as a resource for replication as more genes become identified with BMI and WC.
  3. Clozapine
    D E Adkins et al. Molecular psychiatry 2011, Genomewide pharmacogenomic study of metabolic side effects to antipsychotic drugs., Molecular psychiatry. [PubMed 20195266]
           more ... click here to view the complete list

-  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: 9.78 RPKM in Whole Blood
Total median expression: 190.41 RPKM



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

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -92.50354-0.261 Picture PostScript Text
3' UTR -80.00325-0.246 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
IPR007087 - Znf_C2H2
IPR015880 - Znf_C2H2-like
IPR013087 - Znf_C2H2/integrase_DNA-bd

Pfam Domains:
PF00096 - Zinc finger, C2H2 type
PF12874 - Zinc-finger of C2H2 type
PF13894 - C2H2-type zinc finger

SCOP Domains:
57667 - C2H2 and C2HC zinc fingers

ModBase Predicted Comparative 3D Structure on Q7Z4V0
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:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0046872 metal ion binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0045892 negative regulation of transcription, DNA-templated

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  AK292730 - Homo sapiens cDNA FLJ76464 complete cds.
AF428258 - Homo sapiens hypothetical protein mRNA, complete cds.
DQ356011 - Homo sapiens ZNF438 transcript variant 2 (ZNF438) mRNA, complete cds.
DQ356012 - Homo sapiens ZNF438 transcript variant 3 (ZNF438) mRNA, complete cds.
LP895208 - Sequence 72 from Patent EP3253886.
AK131357 - Homo sapiens cDNA FLJ16387 fis, clone TRACH2007483, weakly similar to GASTRULA ZINC FINGER PROTEIN XLCGF7.1.
AK294253 - Homo sapiens cDNA FLJ57968 complete cds, highly similar to Zinc finger protein 438.
AK057323 - Homo sapiens cDNA FLJ32761 fis, clone TESTI2001815, highly similar to Zinc finger protein 438.
BC101622 - Homo sapiens zinc finger protein 438, mRNA (cDNA clone MGC:126671 IMAGE:8069128), complete cds.
BC104757 - Homo sapiens zinc finger protein 438, mRNA (cDNA clone MGC:132417 IMAGE:8143760), complete cds.
BC143462 - Homo sapiens cDNA clone IMAGE:9051970.
BC143464 - Homo sapiens cDNA clone IMAGE:9051972.
BC104669 - Homo sapiens cDNA clone IMAGE:30320217.
AF440405 - Homo sapiens unknown mRNA.
AL833056 - Homo sapiens mRNA; cDNA DKFZp666L129 (from clone DKFZp666L129).
AK097092 - Homo sapiens cDNA FLJ39773 fis, clone SPLEN2001354.
JD116402 - Sequence 97426 from Patent EP1572962.
JD064198 - Sequence 45222 from Patent EP1572962.
JD064197 - Sequence 45221 from Patent EP1572962.
JD054284 - Sequence 35308 from Patent EP1572962.
KJ895851 - Synthetic construct Homo sapiens clone ccsbBroadEn_05245 ZNF438 gene, encodes complete protein.
JD154783 - Sequence 135807 from Patent EP1572962.
JD362349 - Sequence 343373 from Patent EP1572962.
JD281580 - Sequence 262604 from Patent EP1572962.
JD313386 - Sequence 294410 from Patent EP1572962.
JD374816 - Sequence 355840 from Patent EP1572962.
DQ572790 - Homo sapiens piRNA piR-40902, complete sequence.
JD304211 - Sequence 285235 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A2A3J4, A8K9L5, NM_001143768, NP_001137241, Q5T426, Q658Q4, Q6ZN65, Q7Z4V0, ZN438_HUMAN
UCSC ID: uc010qea.2
RefSeq Accession: NM_001143768
Protein: Q7Z4V0 (aka ZN438_HUMAN)
CCDS: CCDS7168.1, CCDS44369.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001143768.1
exon count: 7CDS single in 3' UTR: no RNA size: 3177
ORF size: 2487CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 4886.00frame shift in genome: no % Coverage: 99.65
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: yes # 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.