Human Gene ZNF616 (uc002pym.3) Description and Page Index
  Description: Homo sapiens zinc finger protein 616 (ZNF616), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr19:52,617,653-52,643,191 Size: 25,539 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr19:52,618,071-52,633,765 Size: 15,695 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:52,617,653-52,643,191)mRNA (may differ from genome)Protein (781 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
PubMedReactomeStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: ZN616_HUMAN
DESCRIPTION: RecName: Full=Zinc finger protein 616;
FUNCTION: May be involved in transcriptional regulation.
SUBCELLULAR LOCATION: Nucleus (Probable).
SIMILARITY: Belongs to the krueppel C2H2-type zinc-finger protein family.
SIMILARITY: Contains 21 C2H2-type zinc fingers.
SIMILARITY: Contains 1 KRAB domain.

-  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: 3.68 RPKM in Ovary
Total median expression: 85.66 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 -75.70283-0.267 Picture PostScript Text
3' UTR -115.90418-0.277 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
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 Q08AN1
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 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

Cellular Component:
GO:0005622 intracellular
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  JD303598 - Sequence 284622 from Patent EP1572962.
AK025434 - Homo sapiens cDNA: FLJ21781 fis, clone HEP00223.
AL832969 - Homo sapiens mRNA; cDNA DKFZp666C072 (from clone DKFZp666C072).
BC033199 - Homo sapiens zinc finger protein 616, mRNA (cDNA clone MGC:45848 IMAGE:4865984), complete cds.
AK092266 - Homo sapiens cDNA FLJ34947 fis, clone NT2RP7009087, highly similar to Homo sapiens zinc finger protein 616 (ZNF616), mRNA.
AX747442 - Sequence 967 from Patent EP1308459.
JD288673 - Sequence 269697 from Patent EP1572962.
JD267359 - Sequence 248383 from Patent EP1572962.
JD220148 - Sequence 201172 from Patent EP1572962.
JD280671 - Sequence 261695 from Patent EP1572962.
BC125099 - Homo sapiens zinc finger protein 616, mRNA (cDNA clone MGC:149778 IMAGE:40118292), complete cds.
BC125100 - Homo sapiens zinc finger protein 616, mRNA (cDNA clone IMAGE:40118296), complete cds.
JD126754 - Sequence 107778 from Patent EP1572962.
JD037003 - Sequence 18027 from Patent EP1572962.
JD314871 - Sequence 295895 from Patent EP1572962.
JD314888 - Sequence 295912 from Patent EP1572962.
JD314882 - Sequence 295906 from Patent EP1572962.
JD314878 - Sequence 295902 from Patent EP1572962.
JD314877 - Sequence 295901 from Patent EP1572962.
JD314879 - Sequence 295903 from Patent EP1572962.
JD314878 - Sequence 295902 from Patent EP1572962.
JD314877 - Sequence 295901 from Patent EP1572962.
JD314879 - Sequence 295903 from Patent EP1572962.
JD302537 - Sequence 283561 from Patent EP1572962.
JD043754 - Sequence 24778 from Patent EP1572962.
JD386825 - Sequence 367849 from Patent EP1572962.
JD053095 - Sequence 34119 from Patent EP1572962.

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

Protein Q08AN1 (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: B3KRV1, NM_178523, NP_848618, Q08AN1, Q0P658, Q658V7, ZN616_HUMAN
UCSC ID: uc002pym.3
RefSeq Accession: NM_178523
Protein: Q08AN1 (aka ZN616_HUMAN)
CCDS: CCDS33090.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_178523.3
exon count: 4CDS single in 3' UTR: no RNA size: 3070
ORF size: 2346CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 4886.00frame shift in genome: no % Coverage: 99.25
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
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