Human Gene ZFP1 (ENST00000570010.6_4) from GENCODE V47lift37
  Description: ZFP1 zinc finger protein, transcript variant 1 (from RefSeq NM_153688.4)
Gencode Transcript: ENST00000570010.6_4
Gencode Gene: ENSG00000184517.12_7
Transcript (Including UTRs)
   Position: hg19 chr16:75,182,422-75,206,132 Size: 23,711 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chr16:75,186,850-75,204,232 Size: 17,383 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:75,182,422-75,206,132)mRNA (may differ from genome)Protein (407 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMGIOMIMPubMedReactomeUniProtKB
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: ZFP1_HUMAN
DESCRIPTION: RecName: Full=Zinc finger protein 1 homolog; Short=Zfp-1; AltName: Full=Zinc finger protein 475;
FUNCTION: May be involved in transcriptional regulation.
SUBCELLULAR LOCATION: Nucleus (Probable).
SIMILARITY: Belongs to the krueppel C2H2-type zinc-finger protein family.
SIMILARITY: Contains 8 C2H2-type zinc fingers.
SIMILARITY: Contains 1 KRAB domain.
SEQUENCE CAUTION: Sequence=AAH33774.1; Type=Erroneous initiation;

-  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: 5.93 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 147.80 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -53.60163-0.329 Picture PostScript Text
3' UTR -436.101900-0.230 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
PF12874 - Zinc-finger of C2H2 type
PF13465 - Zinc-finger double domain
PF13912 - C2H2-type zinc finger

SCOP Domains:
109640 - KRAB domain (Kruppel-associated box)
57667 - beta-beta-alpha zinc fingers
57716 - Glucocorticoid receptor-like (DNA-binding domain)
57783 - Zinc beta-ribbon
57802 - Rubredoxin-like
63393 - RNA polymerase subunits
57889 - Cysteine-rich domain
57903 - FYVE/PHD zinc finger
161219 - CHY zinc finger-like

ModBase Predicted Comparative 3D Structure on Q6P2D0
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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 orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  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
  AK296560 - Homo sapiens cDNA FLJ58579 complete cds, highly similar to Zinc finger protein 1.
AK291372 - Homo sapiens cDNA FLJ78269 complete cds, highly similar to Homo sapiens zinc finger protein 1 homolog (mouse) (ZFP1), mRNA.
LF384462 - JP 2014500723-A/191965: Polycomb-Associated Non-Coding RNAs.
LP896030 - Sequence 894 from Patent EP3253886.
AK094761 - Homo sapiens cDNA FLJ37442 fis, clone BRAWH2007570, highly similar to ZINC FINGER PROTEIN ZFP-1.
AK308134 - Homo sapiens cDNA, FLJ98082.
BC064604 - Homo sapiens zinc finger protein 1 homolog (mouse), mRNA (cDNA clone IMAGE:5784831), partial cds.
JD126960 - Sequence 107984 from Patent EP1572962.
BC160028 - Synthetic construct Homo sapiens clone IMAGE:100063964, MGC:193143 zinc finger protein 1 homolog (mouse) (ZFP1) mRNA, encodes complete protein.
BC113863 - Homo sapiens zinc finger protein 1 homolog (mouse), mRNA (cDNA clone IMAGE:40033409), partial cds.
BC114471 - Homo sapiens zinc finger protein 1 homolog (mouse), mRNA (cDNA clone IMAGE:40033410), partial cds.
BC127184 - Homo sapiens zinc finger protein 1 homolog (mouse), mRNA (cDNA clone IMAGE:40033411), partial cds.
JD418195 - Sequence 399219 from Patent EP1572962.
BX647144 - Homo sapiens mRNA; cDNA DKFZp779I2415 (from clone DKFZp779I2415).
AB385593 - Synthetic construct DNA, clone: pF1KB9538, Homo sapiens ZFP1 gene for zinc finger protein 1 homolog, complete cds, without stop codon, in Flexi system.
LF374747 - JP 2014500723-A/182250: Polycomb-Associated Non-Coding RNAs.
LF374748 - JP 2014500723-A/182251: Polycomb-Associated Non-Coding RNAs.
BC033774 - Homo sapiens zinc finger protein 1 homolog (mouse), mRNA (cDNA clone IMAGE:3917472), partial cds.
LF374749 - JP 2014500723-A/182252: Polycomb-Associated Non-Coding RNAs.
AK091562 - Homo sapiens cDNA FLJ34243 fis, clone FCBBF3028593.
AX747061 - Sequence 586 from Patent EP1308459.
LF374750 - JP 2014500723-A/182253: Polycomb-Associated Non-Coding RNAs.
JD314818 - Sequence 295842 from Patent EP1572962.
LF374751 - JP 2014500723-A/182254: Polycomb-Associated Non-Coding RNAs.
LF374752 - JP 2014500723-A/182255: Polycomb-Associated Non-Coding RNAs.
LF374753 - JP 2014500723-A/182256: Polycomb-Associated Non-Coding RNAs.
JD483913 - Sequence 464937 from Patent EP1572962.
LF374754 - JP 2014500723-A/182257: Polycomb-Associated Non-Coding RNAs.
JD087766 - Sequence 68790 from Patent EP1572962.
JD563657 - Sequence 544681 from Patent EP1572962.
JD279832 - Sequence 260856 from Patent EP1572962.
JD282658 - Sequence 263682 from Patent EP1572962.
JD259493 - Sequence 240517 from Patent EP1572962.
JD312908 - Sequence 293932 from Patent EP1572962.
JD186134 - Sequence 167158 from Patent EP1572962.
JD225558 - Sequence 206582 from Patent EP1572962.
JD061396 - Sequence 42420 from Patent EP1572962.
JD289615 - Sequence 270639 from Patent EP1572962.
JD428213 - Sequence 409237 from Patent EP1572962.
JD042936 - Sequence 23960 from Patent EP1572962.
JD433059 - Sequence 414083 from Patent EP1572962.
JD335112 - Sequence 316136 from Patent EP1572962.
JD305583 - Sequence 286607 from Patent EP1572962.
JD171675 - Sequence 152699 from Patent EP1572962.
MA620039 - JP 2018138019-A/191965: Polycomb-Associated Non-Coding RNAs.
MA610324 - JP 2018138019-A/182250: Polycomb-Associated Non-Coding RNAs.
MA610325 - JP 2018138019-A/182251: Polycomb-Associated Non-Coding RNAs.
MA610326 - JP 2018138019-A/182252: Polycomb-Associated Non-Coding RNAs.
MA610327 - JP 2018138019-A/182253: Polycomb-Associated Non-Coding RNAs.
MA610328 - JP 2018138019-A/182254: Polycomb-Associated Non-Coding RNAs.
MA610329 - JP 2018138019-A/182255: Polycomb-Associated Non-Coding RNAs.
MA610330 - JP 2018138019-A/182256: Polycomb-Associated Non-Coding RNAs.
MA610331 - JP 2018138019-A/182257: Polycomb-Associated Non-Coding RNAs.

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

Protein Q6P2D0 (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: A8K5Q7, B4DKG9, ENST00000570010.1, ENST00000570010.2, ENST00000570010.3, ENST00000570010.4, ENST00000570010.5, NM_153688, Q6P2D0, Q8N188, Q8N9F9, uc325zzv.1, uc325zzv.2, ZFP1_HUMAN, ZNF475
UCSC ID: ENST00000570010.6_4
RefSeq Accession: NM_153688.4
Protein: Q6P2D0 (aka ZFP1_HUMAN)

-  Gene Model Information
  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.