Human Gene POGK (ENST00000367876.9_4) from GENCODE V47lift37

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Description: pogo transposable element derived with KRAB domain, transcript variant 1 (from RefSeq NM_017542.5)
Gencode Transcript: ENST00000367876.9_4
Gencode Gene: ENSG00000143157.12_11
Transcript (Including UTRs)
Position: hg19 chr1:166,808,712-166,825,596 Size: 16,885 Total Exon Count: 6 Strand: +
Coding Region
Position: hg19 chr1:166,810,194-166,819,646 Size: 9,453 Coding Exon Count: 4

Page Index	Sequence and Links	UniProtKB Comments	Primers	CTD	Gene Alleles
RNA-Seq Expression	RNA Structure	Protein Structure	Other Species	GO Annotations	mRNA Descriptions
Other Names	Model Information	Methods

Data last updated at UCSC: 2024-08-22 23:36:26

Sequence and Links to Tools and Databases

Genomic Sequence (chr1:166,808,712-166,825,596)			mRNA (may differ from genome)		Protein (609 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	MGI	PubMed	UniProtKB	BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: POGK_HUMAN DESCRIPTION: RecName: Full=Pogo transposable element with KRAB domain; SUBCELLULAR LOCATION: Nucleus (Probable). SIMILARITY: Contains 1 DDE domain. SIMILARITY: Contains 1 HTH CENPB-type DNA-binding domain. SIMILARITY: Contains 1 KRAB domain. SEQUENCE CAUTION: Sequence=AAM12422.1; Type=Erroneous initiation; Sequence=BAA96037.1; 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 D016572 Cyclosporine D013749 Tetrachlorodibenzodioxin C517041 (4-amino-1,4-dihydro-3-(2-pyridyl)-5-thioxo-1,2,4-triazole)copper(II) C009505 4,4'-diaminodiphenylmethane D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide D016604 Aflatoxin B1 D001564 Benzo(a)pyrene D005557 Formaldehyde D007854 Lead D008628 Mercury more ... click here to view the complete list

Common Gene Haplotype Alleles


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RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)


	Highest median expression: 12.11 RPKM in Brain - Spinal cord (cervical c-1) Total median expression: 376.25 RPKM View in GTEx track of Genome Browser View at GTEx portal View GTEx Body Map

mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-61.20	132	-0.464	Picture	PostScript	Text
3' UTR	-1046.10	3789	-0.276	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
IPR018586 - Brinker_DNA-bd
IPR004875 - DDE_SF_endonuclease_CENPB-like
IPR009057 - Homeodomain-like
IPR006600 - HTH_CenpB_DNA-bd_dom
IPR001909 - Krueppel-associated_box

Pfam Domains:
PF01352 - KRAB box
PF03184 - DDE superfamily endonuclease
PF03221 - Tc5 transposase DNA-binding domain
PF09607 - Brinker DNA-binding domain

SCOP Domains:
109640 - KRAB domain (Kruppel-associated box)
46689 - Homeodomain-like
48295 - TrpR-like
88659 - Sigma3 and sigma4 domains of RNA polymerase sigma factors

ModBase Predicted Comparative 3D Structure on Q9P215


Front	Top	Side

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.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	No ortholog	No ortholog
Gene Details	Gene Details
Gene Sorter	Gene Sorter
	RGD

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0003676 nucleic acid binding GO:0003677 DNA binding GO:0005515 protein binding Biological Process: GO:0006355 regulation of transcription, DNA-templated GO:0007275 multicellular organism development Cellular Component: GO:0005622 intracellular GO:0005634 nucleus

Descriptions from all associated GenBank mRNAs


	AK299537 - Homo sapiens cDNA FLJ58256 complete cds, highly similar to Pogo transposable element with KRAB domain. AK293946 - Homo sapiens cDNA FLJ58794 complete cds, highly similar to Pogo transposable element with KRAB domain. AB040946 - Homo sapiens KIAA1513 mRNA for KIAA1513 protein. AK056711 - Homo sapiens cDNA FLJ32149 fis, clone PLACE5000159, highly similar to Pogo transposable element with KRAB domain. JD461099 - Sequence 442123 from Patent EP1572962. BC131624 - Homo sapiens pogo transposable element with KRAB domain, mRNA (cDNA clone MGC:149714 IMAGE:40117695), complete cds. KJ899359 - Synthetic construct Homo sapiens clone ccsbBroadEn_08753 POGK gene, encodes complete protein. JD262278 - Sequence 243302 from Patent EP1572962. AF111706 - Homo sapiens SLTP003 (LST003) mRNA, complete cds. BC016390 - Homo sapiens pogo transposable element with KRAB domain, mRNA (cDNA clone IMAGE:3863491), partial cds. AK027079 - Homo sapiens cDNA: FLJ23426 fis, clone HEP22973. JD434855 - Sequence 415879 from Patent EP1572962. JD309853 - Sequence 290877 from Patent EP1572962. AK093951 - Homo sapiens cDNA FLJ36632 fis, clone TRACH2018446. JD168874 - Sequence 149898 from Patent EP1572962. JD479185 - Sequence 460209 from Patent EP1572962. JD146825 - Sequence 127849 from Patent EP1572962. JD501575 - Sequence 482599 from Patent EP1572962. JD540085 - Sequence 521109 from Patent EP1572962. JD312901 - Sequence 293925 from Patent EP1572962. JD557124 - Sequence 538148 from Patent EP1572962. JD051205 - Sequence 32229 from Patent EP1572962. AF131746 - Homo sapiens clone 25151 mRNA sequence. AF139898 - Homo sapiens unknown mRNA. JD533993 - Sequence 515017 from Patent EP1572962. JD154378 - Sequence 135402 from Patent EP1572962. JD305808 - Sequence 286832 from Patent EP1572962. JD218742 - Sequence 199766 from Patent EP1572962. JD563472 - Sequence 544496 from Patent EP1572962. JD551839 - Sequence 532863 from Patent EP1572962. JD508195 - Sequence 489219 from Patent EP1572962. JD448648 - Sequence 429672 from Patent EP1572962. JD392643 - Sequence 373667 from Patent EP1572962. JD316004 - Sequence 297028 from Patent EP1572962. JD354106 - Sequence 335130 from Patent EP1572962. JD190868 - Sequence 171892 from Patent EP1572962. JD433013 - Sequence 414037 from Patent EP1572962. JD323215 - Sequence 304239 from Patent EP1572962. JD320919 - Sequence 301943 from Patent EP1572962. JD038284 - Sequence 19308 from Patent EP1572962. JD315805 - Sequence 296829 from Patent EP1572962. JD489571 - Sequence 470595 from Patent EP1572962. JD140396 - Sequence 121420 from Patent EP1572962. JD318631 - Sequence 299655 from Patent EP1572962.

Other Names for This Gene


	Alternate Gene Symbols: ENST00000367876.1, ENST00000367876.2, ENST00000367876.3, ENST00000367876.4, ENST00000367876.5, ENST00000367876.6, ENST00000367876.7, ENST00000367876.8, KIAA1513, LST003, NM_017542, POGK_HUMAN, Q5TIJ1, Q8TE07, Q9P215, SLTP003, uc318ggw.1, uc318ggw.2 UCSC ID: ENST00000367876.9_4 RefSeq Accession: NM_017542.5 Protein: Q9P215 (aka POGK_HUMAN)

Gene Model Information


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Methods, Credits, and Use Restrictions


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