Human Gene ZNF615 (uc002pyf.2)
  Description: Homo sapiens zinc finger protein 615 (ZNF615), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr19:52,494,587-52,511,483 Size: 16,897 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg19 chr19:52,496,133-52,506,964 Size: 10,832 Coding Exon Count: 5 

Page IndexSequence and LinksPrimersGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:52,494,587-52,511,483)mRNA (may differ from genome)Protein (742 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsH-INV
HGNCLynxMGIPubMedReactomeTreefam
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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): ZNF615
CDC HuGE Published Literature: ZNF615
Positive Disease Associations: Parkinson Disease
Related Studies:
  1. Parkinson Disease
    , , . [PubMed 0]

-  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: 5.39 RPKM in Prostate
Total median expression: 127.73 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 -94.90317-0.299 Picture PostScript Text
3' UTR -336.201546-0.217 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

ModBase Predicted Comparative 3D Structure on Q8N8J6-2
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
      
      
      
      
      

-  Descriptions from all associated GenBank mRNAs
  JD052293 - Sequence 33317 from Patent EP1572962.
AK094071 - Homo sapiens cDNA FLJ36752 fis, clone UTERU2017715, weakly similar to Homo sapiens zinc finger protein dp mRNA.
AX748441 - Sequence 1966 from Patent EP1308459.
AK091029 - Homo sapiens cDNA FLJ33710 fis, clone BRAWH2008058.
AX746740 - Sequence 265 from Patent EP1308459.
AK128361 - Homo sapiens cDNA FLJ46504 fis, clone THYMU3030072, moderately similar to Zinc finger protein 84.
BX647556 - Homo sapiens mRNA; cDNA DKFZp686N16128 (from clone DKFZp686N16128).
AK131494 - Homo sapiens cDNA FLJ16690 fis, clone TRACH3000134, moderately similar to ZINC FINGER PROTEIN 84.
BC053884 - Homo sapiens zinc finger protein 615, mRNA (cDNA clone IMAGE:6060422).
BX648594 - Homo sapiens mRNA; cDNA DKFZp686O05205 (from clone DKFZp686O05205).
CR936612 - Homo sapiens mRNA; cDNA DKFZp686O1554 (from clone DKFZp686O1554).
BC112961 - Homo sapiens cDNA clone IMAGE:7483635.
JD235347 - Sequence 216371 from Patent EP1572962.
JD261851 - Sequence 242875 from Patent EP1572962.
JD509977 - Sequence 491001 from Patent EP1572962.
JD303947 - Sequence 284971 from Patent EP1572962.
JD245158 - Sequence 226182 from Patent EP1572962.
JD561795 - Sequence 542819 from Patent EP1572962.
JD148621 - Sequence 129645 from Patent EP1572962.
AK096691 - Homo sapiens cDNA FLJ39372 fis, clone PEBLM2007832.
AK294977 - Homo sapiens cDNA FLJ61251 complete cds, highly similar to Homo sapiens zinc finger protein 615 (ZNF615), mRNA.
JD315026 - Sequence 296050 from Patent EP1572962.
JD280208 - Sequence 261232 from Patent EP1572962.
JD091095 - Sequence 72119 from Patent EP1572962.
JD288574 - Sequence 269598 from Patent EP1572962.
AK291734 - Homo sapiens cDNA FLJ76718 complete cds.
JD042664 - Sequence 23688 from Patent EP1572962.
JD225580 - Sequence 206604 from Patent EP1572962.
BC105100 - Homo sapiens zinc finger protein 615, mRNA (cDNA clone MGC:132760 IMAGE:8144103), complete cds.
BC105102 - Homo sapiens zinc finger protein 615, mRNA (cDNA clone MGC:132762 IMAGE:8144105), complete cds.
BC143429 - Homo sapiens zinc finger protein 615, mRNA (cDNA clone MGC:176954 IMAGE:9051937), complete cds.
KJ900568 - Synthetic construct Homo sapiens clone ccsbBroadEn_09962 ZNF615 gene, encodes complete protein.
DQ582196 - Homo sapiens piRNA piR-32308, complete sequence.
JD076385 - Sequence 57409 from Patent EP1572962.
JD440227 - Sequence 421251 from Patent EP1572962.
JD178427 - Sequence 159451 from Patent EP1572962.
JD515059 - Sequence 496083 from Patent EP1572962.
JD400704 - Sequence 381728 from Patent EP1572962.

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

Protein Q8N8J6 (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_001199324, NP_001186253, Q8N8J6-2
UCSC ID: uc002pyf.2
RefSeq Accession: NM_001199324
Protein: Q8N8J6-2, splice isoform of Q8N8J6 CCDS: CCDS12846.1, CCDS59418.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001199324.1
exon count: 7CDS single in 3' UTR: no RNA size: 4110
ORF size: 2229CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3673.00frame shift in genome: no % Coverage: 99.56
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.