Human Gene ZNF382 (uc010efb.4)
  Description: Homo sapiens zinc finger protein 382 (ZNF382), transcript variant 2, mRNA.
RefSeq Summary (NM_001256838): This gene encodes a KRAB domain zinc finger transcription factor (KZNF). KZNFs play critical roles in the regulation of many cellular processes including differentiation, proliferation and apoptosis. The encoded protein inhibits activating protein 1 (AP-1) and nuclear factor kappa-B (NF-kB) signaling and may function as a tumor suppressor in multiple carcinomas. This gene is found in a cluster with other zinc finger protein genes on the long arm of chromosome 19, and alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Feb 2012].
Transcript (Including UTRs)
   Position: hg19 chr19:37,096,207-37,119,499 Size: 23,293 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr19:37,098,516-37,118,452 Size: 19,937 Coding Exon Count: 4 

Page IndexSequence and LinksPrimersCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA DescriptionsPathways
Other NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:37,096,207-37,119,499)mRNA (may differ from genome)Protein (549 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsH-INV
HGNCLynxMGIOMIMPubMedReactome
UniProtKBBioGrid CRISPR DB

-  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

+  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: 10.49 RPKM in Brain - Cerebellum
Total median expression: 64.61 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 -32.80105-0.312 Picture PostScript Text
3' UTR -233.411047-0.223 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
  Pfam Domains:
PF00096 - Zinc finger, C2H2 type
PF01352 - KRAB box
PF13894 - C2H2-type zinc finger
PF13912 - C2H2-type zinc finger

SCOP Domains:
48695 - Multiheme cytochromes
109640 - KRAB domain (Kruppel-associated box, Pfam 01352)
57667 - C2H2 and C2HC zinc fingers
57903 - FYVE/PHD zinc finger

ModBase Predicted Comparative 3D Structure on Q96SR6-2
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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.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Descriptions from all associated GenBank mRNAs
  BC038358 - Homo sapiens zinc finger protein 382, mRNA (cDNA clone IMAGE:4823055).
AK027592 - Homo sapiens cDNA FLJ14686 fis, clone NT2RP2004961, moderately similar to Rattus norvegicus KRAB/zinc finger suppressor protein 1 (KS1) mRNA.
AY227449 - Homo sapiens multiple-zinc-finger-Kruppel-associated box protein KS1 mRNA, complete cds.
AF513816 - Homo sapiens zinc finger protein 382 (ZNF382) mRNA, complete cds.
BC132675 - Homo sapiens zinc finger protein 382, mRNA (cDNA clone MGC:164306 IMAGE:40146697), complete cds.
JD500022 - Sequence 481046 from Patent EP1572962.
AL832265 - Homo sapiens mRNA; cDNA DKFZp667L0117 (from clone DKFZp667L0117).
BC156539 - Synthetic construct Homo sapiens clone IMAGE:100063169, MGC:190712 zinc finger protein 382 (ZNF382) mRNA, encodes complete protein.
BC172501 - Synthetic construct Homo sapiens clone IMAGE:100069195, MGC:199206 zinc finger protein 382 (ZNF382) mRNA, encodes complete protein.
DQ574228 - Homo sapiens piRNA piR-42340, complete sequence.
JD053929 - Sequence 34953 from Patent EP1572962.
JD112009 - Sequence 93033 from Patent EP1572962.
JD172575 - Sequence 153599 from Patent EP1572962.
JD326598 - Sequence 307622 from Patent EP1572962.
JD061256 - Sequence 42280 from Patent EP1572962.
JD446278 - Sequence 427302 from Patent EP1572962.
JD525017 - Sequence 506041 from Patent EP1572962.
JD292252 - Sequence 273276 from Patent EP1572962.
JD083511 - Sequence 64535 from Patent EP1572962.
JD426538 - Sequence 407562 from Patent EP1572962.
JD050072 - Sequence 31096 from Patent EP1572962.
JD350853 - Sequence 331877 from Patent EP1572962.
JD494789 - Sequence 475813 from Patent EP1572962.
JD053290 - Sequence 34314 from Patent EP1572962.
JD508194 - Sequence 489218 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q96SR6 (Reactome details) participates in the following event(s):

R-HSA-975040 KRAB-ZNF / KAP Interaction
R-HSA-212436 Generic Transcription Pathway
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: NM_001256838, NP_001243767, Q96SR6-2, uc010efb.3
UCSC ID: uc010efb.4
RefSeq Accession: NM_001256838
Protein: Q96SR6-2, splice isoform of Q96SR6 CCDS: CCDS33004.1, CCDS58659.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001256838.1
exon count: 5CDS single in 3' UTR: no RNA size: 2819
ORF size: 1650CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3500.00frame shift in genome: no % Coverage: 99.40
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.