Human Gene ZNF551 (ENST00000282296.10_4) from GENCODE V47lift37
  Description: zinc finger protein 551, transcript variant 1 (from RefSeq NM_138347.5)
Gencode Transcript: ENST00000282296.10_4
Gencode Gene: ENSG00000204519.11_8
Transcript (Including UTRs)
   Position: hg19 chr19:58,193,345-58,202,016 Size: 8,672 Total Exon Count: 3 Strand: +
Coding Region
   Position: hg19 chr19:58,193,532-58,199,656 Size: 6,125 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:58,193,345-58,202,016)mRNA (may differ from genome)Protein (670 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIPubMedReactomeUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: ZN551_HUMAN
DESCRIPTION: RecName: Full=Zinc finger protein 551; AltName: Full=Zinc finger protein KOX23;
FUNCTION: May be involved in transcriptional regulation.
SUBCELLULAR LOCATION: Nucleus (Probable).
SIMILARITY: Belongs to the krueppel C2H2-type zinc-finger protein family.
SIMILARITY: Contains 14 C2H2-type zinc fingers.
SIMILARITY: Contains 1 KRAB domain.
CAUTION: It is uncertain whether Met-1 or Met-17 is the initiator.
SEQUENCE CAUTION: Sequence=AAH05868.1; Type=Erroneous initiation; Note=Translation N-terminally extended;

-  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: 5.42 RPKM in Brain - Cerebellum
Total median expression: 84.30 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 -77.10187-0.412 Picture PostScript Text
3' UTR -716.802360-0.304 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
PF13894 - C2H2-type zinc finger
PF13912 - C2H2-type zinc finger

SCOP Domains:
109640 - KRAB domain (Kruppel-associated box)
55550 - SH2 domain
57667 - beta-beta-alpha zinc fingers
57783 - Zinc beta-ribbon
57889 - Cysteine-rich domain

ModBase Predicted Comparative 3D Structure on Q7Z340
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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    
Gene SorterGene Sorter    
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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: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
  AK307670 - Homo sapiens cDNA, FLJ97618.
BX538151 - Homo sapiens mRNA; cDNA DKFZp686H1038 (from clone DKFZp686H1038).
AK300465 - Homo sapiens cDNA FLJ50865 partial cds, highly similar to Zinc finger protein 551.
AK091273 - Homo sapiens cDNA FLJ33954 fis, clone CTONG2018637, weakly similar to ZINC FINGER PROTEIN 84.
AX746889 - Sequence 414 from Patent EP1308459.
BC005868 - Homo sapiens zinc finger protein 551, mRNA (cDNA clone MGC:4079 IMAGE:3530863), complete cds.
BC041615 - Homo sapiens zinc finger protein 551, mRNA (cDNA clone IMAGE:5814191).
AB527717 - Synthetic construct DNA, clone: pF1KB6223, Homo sapiens ZNF551 gene for zinc finger protein 551, without stop codon, in Flexi system.
CU692008 - Synthetic construct Homo sapiens gateway clone IMAGE:100022375 5' read ZNF551 mRNA.
KJ903540 - Synthetic construct Homo sapiens clone ccsbBroadEn_12934 ZNF551 gene, encodes complete protein.
JD174454 - Sequence 155478 from Patent EP1572962.
JD311289 - Sequence 292313 from Patent EP1572962.
X52354 - Human Kox23 mRNA for zinc finger protein, partial.
JD509219 - Sequence 490243 from Patent EP1572962.
JD142769 - Sequence 123793 from Patent EP1572962.
JD176788 - Sequence 157812 from Patent EP1572962.
JD121433 - Sequence 102457 from Patent EP1572962.
JD276808 - Sequence 257832 from Patent EP1572962.
JD131014 - Sequence 112038 from Patent EP1572962.
JD059951 - Sequence 40975 from Patent EP1572962.
JD335072 - Sequence 316096 from Patent EP1572962.
JD456339 - Sequence 437363 from Patent EP1572962.
JD375821 - Sequence 356845 from Patent EP1572962.
JD309861 - Sequence 290885 from Patent EP1572962.
JD112625 - Sequence 93649 from Patent EP1572962.
JD297396 - Sequence 278420 from Patent EP1572962.
JD155328 - Sequence 136352 from Patent EP1572962.
JD301511 - Sequence 282535 from Patent EP1572962.
JD282603 - Sequence 263627 from Patent EP1572962.
JD540452 - Sequence 521476 from Patent EP1572962.
JD527516 - Sequence 508540 from Patent EP1572962.
JD281183 - Sequence 262207 from Patent EP1572962.
JD549214 - Sequence 530238 from Patent EP1572962.
JD549862 - Sequence 530886 from Patent EP1572962.
JD086732 - Sequence 67756 from Patent EP1572962.
JD234234 - Sequence 215258 from Patent EP1572962.
JD270104 - Sequence 251128 from Patent EP1572962.
JD546668 - Sequence 527692 from Patent EP1572962.
JD330022 - Sequence 311046 from Patent EP1572962.
JD216176 - Sequence 197200 from Patent EP1572962.
JD101889 - Sequence 82913 from Patent EP1572962.
JD362035 - Sequence 343059 from Patent EP1572962.
JD425431 - Sequence 406455 from Patent EP1572962.
JD482740 - Sequence 463764 from Patent EP1572962.
JD225133 - Sequence 206157 from Patent EP1572962.
JD351807 - Sequence 332831 from Patent EP1572962.
JD523736 - Sequence 504760 from Patent EP1572962.
JD247764 - Sequence 228788 from Patent EP1572962.
JD557292 - Sequence 538316 from Patent EP1572962.
JD557293 - Sequence 538317 from Patent EP1572962.
JD529088 - Sequence 510112 from Patent EP1572962.
JD529089 - Sequence 510113 from Patent EP1572962.
JD169135 - Sequence 150159 from Patent EP1572962.
JD169136 - Sequence 150160 from Patent EP1572962.
JD041175 - Sequence 22199 from Patent EP1572962.
JD320794 - Sequence 301818 from Patent EP1572962.
JD386849 - Sequence 367873 from Patent EP1572962.
JD386852 - Sequence 367876 from Patent EP1572962.
JD382077 - Sequence 363101 from Patent EP1572962.
JD333741 - Sequence 314765 from Patent EP1572962.
JD183823 - Sequence 164847 from Patent EP1572962.
JD091990 - Sequence 73014 from Patent EP1572962.
JD292376 - Sequence 273400 from Patent EP1572962.
JD534406 - Sequence 515430 from Patent EP1572962.
JD451483 - Sequence 432507 from Patent EP1572962.
JD364506 - Sequence 345530 from Patent EP1572962.
JD143976 - Sequence 125000 from Patent EP1572962.
JD230001 - Sequence 211025 from Patent EP1572962.
JD269552 - Sequence 250576 from Patent EP1572962.
JD452572 - Sequence 433596 from Patent EP1572962.
JD149188 - Sequence 130212 from Patent EP1572962.
JD149190 - Sequence 130214 from Patent EP1572962.
JD149191 - Sequence 130215 from Patent EP1572962.

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

Protein Q7Z340 (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: B4DU22, ENST00000282296.1, ENST00000282296.2, ENST00000282296.3, ENST00000282296.4, ENST00000282296.5, ENST00000282296.6, ENST00000282296.7, ENST00000282296.8, ENST00000282296.9, KOX23, NM_138347, P17034, Q7Z340, Q8N246, Q9BRY1, uc317jzb.1, uc317jzb.2, ZN551_HUMAN
UCSC ID: ENST00000282296.10_4
RefSeq Accession: NM_138347.5
Protein: Q7Z340 (aka ZN551_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.