Human Gene ZFP28 (uc002qnj.3) Description and Page Index
  Description: Homo sapiens ZFP28 zinc finger protein (ZFP28), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr19:57,050,317-57,068,170 Size: 17,854 Total Exon Count: 8 Strand: +
Coding Region
   Position: hg19 chr19:57,050,388-57,066,761 Size: 16,374 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:57,050,317-57,068,170)mRNA (may differ from genome)Protein (868 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedReactomeStanford SOURCETreefam
UniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: ZFP28_HUMAN
DESCRIPTION: RecName: Full=Zinc finger protein 28 homolog; Short=Zfp-28; AltName: Full=Krueppel-like zinc finger factor X6;
FUNCTION: May be involved in transcriptional regulation. May have a role in embryonic development.
SUBCELLULAR LOCATION: Nucleus (Potential).
SIMILARITY: Belongs to the krueppel C2H2-type zinc-finger protein family.
SIMILARITY: Contains 15 C2H2-type zinc fingers.
SIMILARITY: Contains 2 KRAB domains.
SEQUENCE CAUTION: Sequence=BAA92669.1; Type=Erroneous initiation;

-  MalaCards Disease Associations
  MalaCards Gene Search: ZFP28
Diseases sorted by gene-association score: alternating hemiplegia of childhood (1)

-  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: 5.14 RPKM in Testis
Total median expression: 118.03 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 -24.0071-0.338 Picture PostScript Text
3' UTR -362.191409-0.257 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
PF13912 - C2H2-type zinc finger

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

Protein Data Bank (PDB) 3-D Structure
MuPIT help

2EM2
- NMR MuPIT

2EM3
- NMR MuPIT

2EM4
- NMR MuPIT
To conserve bandwidth, only the images from the first 3 structures are shown.
2EMJ - NMR MuPIT 2EMK - NMR MuPIT 2EML - NMR MuPIT
2EN9 - NMR MuPIT 2ENH - NMR MuPIT 2EOH - NMR MuPIT
2EP0 - NMR MuPIT 2EPX - NMR MuPIT 2EPZ - NMR MuPIT
2YTM - NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q8NHY6
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

Cellular Component:
GO:0005622 intracellular
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  JD408560 - Sequence 389584 from Patent EP1572962.
AB037852 - Homo sapiens KIAA1431 mRNA for KIAA1431 protein.
AF507045 - Homo sapiens zinc finger protein 28 (ZFP28) mRNA, complete cds.
BC028416 - Homo sapiens zinc finger protein 28 homolog (mouse), mRNA (cDNA clone IMAGE:4823721), complete cds.
BC099903 - Homo sapiens zinc finger protein 28 homolog (mouse), mRNA (cDNA clone IMAGE:5261371), complete cds.
AK289583 - Homo sapiens cDNA FLJ76998 complete cds, highly similar to Homo sapiens zinc finger protein 28 homolog (mouse), mRNA.
BC127002 - Homo sapiens zinc finger protein 28 homolog (mouse), mRNA (cDNA clone MGC:149136 IMAGE:40108311), complete cds.
BC127003 - Homo sapiens zinc finger protein 28 homolog (mouse), mRNA (cDNA clone MGC:149137 IMAGE:40108312), complete cds.
KJ906427 - Synthetic construct Homo sapiens clone ccsbBroadEn_16097 ZFP28 gene, encodes complete protein.
KJ900196 - Synthetic construct Homo sapiens clone ccsbBroadEn_09590 ZFP28 gene, encodes complete protein.
CU688496 - Synthetic construct Homo sapiens gateway clone IMAGE:100018164 5' read ZFP28 mRNA.
AB384204 - Synthetic construct DNA, clone: pF1KSDA1431, Homo sapiens ZFP28 gene for zinc finger protein 28 homolog, complete cds, without stop codon, in Flexi system.
CR749659 - Homo sapiens mRNA; cDNA DKFZp686K03205 (from clone DKFZp686K03205).
JD314816 - Sequence 295840 from Patent EP1572962.
JD314817 - Sequence 295841 from Patent EP1572962.
AF226995 - Homo sapiens kruppel-like zinc finger factor X6 mRNA, partial cds.
JD314878 - Sequence 295902 from Patent EP1572962.
JD047453 - Sequence 28477 from Patent EP1572962.
JD501997 - Sequence 483021 from Patent EP1572962.
JD265135 - Sequence 246159 from Patent EP1572962.
JD521837 - Sequence 502861 from Patent EP1572962.
JD168020 - Sequence 149044 from Patent EP1572962.
JD039236 - Sequence 20260 from Patent EP1572962.
JD049201 - Sequence 30225 from Patent EP1572962.
JD091664 - Sequence 72688 from Patent EP1572962.

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

Protein Q8NHY6 (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: A0JNV6, KIAA1431, NM_020828, NP_065879, Q8NHY6, Q9BY30, Q9P2B6, ZFP28_HUMAN
UCSC ID: uc002qnj.3
RefSeq Accession: NM_020828
Protein: Q8NHY6 (aka ZFP28_HUMAN or ZF28_HUMAN)
CCDS: CCDS12946.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_020828.1
exon count: 8CDS single in 3' UTR: no RNA size: 4104
ORF size: 2607CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 5414.00frame shift in genome: no % Coverage: 99.59
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.