Human Gene ZNF213 (uc010uwt.3)
  Description: Homo sapiens zinc finger protein 213 (ZNF213), transcript variant 2, mRNA.
RefSeq Summary (NM_001134655): C2H2 zinc finger proteins, such as ZNF213, have bipartite structures in which one domain binds DNA or RNA and the other modulates target gene expression.[supplied by OMIM, Apr 2004].
Transcript (Including UTRs)
   Position: hg19 chr16:3,187,167-3,192,805 Size: 5,639 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chr16:3,188,420-3,191,348 Size: 2,929 Coding Exon Count: 3 

Page IndexSequence and LinksPrimersGene AllelesRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesmRNA DescriptionsOther NamesModel Information
Methods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:3,187,167-3,192,805)mRNA (may differ from genome)Protein (301 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblExonPrimerGeneCardsGeneNetwork
H-INVHGNCLynxMGIPubMedUniProtKB

-  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


+  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: 28.38 RPKM in Testis
Total median expression: 297.20 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 -249.90515-0.485 Picture PostScript Text
3' UTR -550.001457-0.377 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
IPR001909 - Krueppel-associated_box
IPR007087 - Znf_C2H2
IPR015880 - Znf_C2H2-like
IPR013087 - Znf_C2H2/integrase_DNA-bd

Pfam Domains:
PF00096 - Zinc finger, C2H2 type
PF01352 - KRAB box
PF13465 - Zinc-finger double domain
PF13912 - C2H2-type zinc finger

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

ModBase Predicted Comparative 3D Structure on B4DMG6
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     
      
      
      

-  Descriptions from all associated GenBank mRNAs
  AF017433 - Homo sapiens putative transcription factor CR53 (CR53) mRNA, partial cds.
BC007287 - Homo sapiens zinc finger protein 213, mRNA (cDNA clone MGC:15660 IMAGE:3347511), complete cds.
BC116445 - Homo sapiens cDNA clone IMAGE:4914721, with apparent retained intron.
AK291789 - Homo sapiens cDNA FLJ77635 complete cds, highly similar to Homo sapiens zinc finger protein 213, mRNA.
AK055337 - Homo sapiens cDNA FLJ30775 fis, clone FEBRA2000787, highly similar to Homo sapiens putative transcription factor CR53 (CR53) mRNA.
AK289834 - Homo sapiens cDNA FLJ75075 complete cds, highly similar to Homo sapiens zinc finger protein 213 (ZNF213), mRNA.
JD504628 - Sequence 485652 from Patent EP1572962.
JD332838 - Sequence 313862 from Patent EP1572962.
JD291048 - Sequence 272072 from Patent EP1572962.
CU675597 - Synthetic construct Homo sapiens gateway clone IMAGE:100020697 5' read ZNF213 mRNA.
AB464383 - Synthetic construct DNA, clone: pF1KB7791, Homo sapiens ZNF213 gene for zinc finger protein 213, without stop codon, in Flexi system.
KU178402 - Homo sapiens zinc finger protein 213 isoform 1 (ZNF213) mRNA, partial cds.
KU178403 - Homo sapiens zinc finger protein 213 isoform 2 (ZNF213) mRNA, partial cds, alternatively spliced.
JF432377 - Synthetic construct Homo sapiens clone IMAGE:100073574 zinc finger protein 213 (ZNF213) gene, encodes complete protein.
KJ892425 - Synthetic construct Homo sapiens clone ccsbBroadEn_01819 ZNF213 gene, encodes complete protein.
AK297454 - Homo sapiens cDNA FLJ53809 complete cds, highly similar to Zinc finger protein 213.
BC007598 - Homo sapiens zinc finger protein 213, mRNA (cDNA clone IMAGE:3346912), partial cds.
JD333076 - Sequence 314100 from Patent EP1572962.
JD466259 - Sequence 447283 from Patent EP1572962.
JD116581 - Sequence 97605 from Patent EP1572962.
JD521477 - Sequence 502501 from Patent EP1572962.
JD397946 - Sequence 378970 from Patent EP1572962.
JD389650 - Sequence 370674 from Patent EP1572962.
JD508555 - Sequence 489579 from Patent EP1572962.
JD361750 - Sequence 342774 from Patent EP1572962.
JD203925 - Sequence 184949 from Patent EP1572962.
BC080572 - Homo sapiens cDNA clone IMAGE:6568471.
BC012772 - Homo sapiens zinc finger protein 213, mRNA (cDNA clone IMAGE:3835682), partial cds.
JD325722 - Sequence 306746 from Patent EP1572962.
JD341698 - Sequence 322722 from Patent EP1572962.
JD400502 - Sequence 381526 from Patent EP1572962.
JD108743 - Sequence 89767 from Patent EP1572962.
JD478230 - Sequence 459254 from Patent EP1572962.
JD534469 - Sequence 515493 from Patent EP1572962.
JD125239 - Sequence 106263 from Patent EP1572962.
JD392920 - Sequence 373944 from Patent EP1572962.
JD142251 - Sequence 123275 from Patent EP1572962.
JD058710 - Sequence 39734 from Patent EP1572962.
JD055068 - Sequence 36092 from Patent EP1572962.
JD058624 - Sequence 39648 from Patent EP1572962.
JD392920 - Sequence 373944 from Patent EP1572962.
JD400029 - Sequence 381053 from Patent EP1572962.
JD427295 - Sequence 408319 from Patent EP1572962.
JD474073 - Sequence 455097 from Patent EP1572962.
JD411453 - Sequence 392477 from Patent EP1572962.
JD493358 - Sequence 474382 from Patent EP1572962.
JD474074 - Sequence 455098 from Patent EP1572962.
JD320107 - Sequence 301131 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: AK297454, B4DMG6, B4DMG6_HUMAN, uc010uwt.2
UCSC ID: uc010uwt.3
RefSeq Accession: NM_001134655
Protein: B4DMG6

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: AK297454.1
exon count: 4CDS single in 3' UTR: no RNA size: 1313
ORF size: 906CDS single in intron: no Alignment % ID: 99.92
txCdsPredict score: 1591.00frame 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.