Human Gene ZBED4 (ENST00000216268.6_4) from GENCODE V47lift37

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Description: zinc finger BED-type containing 4 (from RefSeq NM_014838.3)
Gencode Transcript: ENST00000216268.6_4
Gencode Gene: ENSG00000100426.8_9
Transcript (Including UTRs)
Position: hg19 chr22:50,247,492-50,283,728 Size: 36,237 Total Exon Count: 2 Strand: +
Coding Region
Position: hg19 chr22:50,277,311-50,280,826 Size: 3,516 Coding Exon Count: 1

Page Index	Sequence and Links	UniProtKB Comments	Primers	CTD	Gene Alleles
RNA-Seq Expression	Microarray 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 (chr22:50,247,492-50,283,728)			mRNA (may differ from genome)		Protein (1171 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	MGI	OMIM	PubMed	UniProtKB	BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: ZBED4_HUMAN DESCRIPTION: RecName: Full=Zinc finger BED domain-containing protein 4; SUBUNIT: Homodimer. SUBCELLULAR LOCATION: Nucleus. Cytoplasm. TISSUE SPECIFICITY: Widely expressed with highest levels in testis, kidney and spinal cord and brain corpus callosum. Expressed in the retina, found in the cone photoreceptors, Mueller cells, cone pedicles and in the innermost retinal layer. SIMILARITY: Contains 4 BED-type zinc fingers. SEQUENCE CAUTION: Sequence=BAA31612.2; Type=Erroneous initiation; Note=Translation N-terminally shortened;

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 D013749 Tetrachlorodibenzodioxin D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide D000082 Acetaminophen D016604 Aflatoxin B1 D001564 Benzo(a)pyrene D016572 Cyclosporine C044887 beta-methylcholine C015559 trimellitic anhydride

Common Gene Haplotype Alleles


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


	Highest median expression: 9.35 RPKM in Cells - EBV-transformed lymphocytes Total median expression: 151.04 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

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-173.70	475	-0.366	Picture	PostScript	Text
3' UTR	-878.60	2902	-0.303	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
IPR008906 - HATC
IPR012337 - RNaseH-like_dom
IPR003656 - Znf_BED_prd

Pfam Domains:
PF02892 - BED zinc finger
PF05699 - hAT family C-terminal dimerisation region

SCOP Domains:
140996 - Hermes dimerisation domain
53098 - Ribonuclease H-like
57667 - beta-beta-alpha zinc fingers
57825 - Aspartate carbamoyltransferase, Regulatory-chain, C-terminal domain

ModBase Predicted Comparative 3D Structure on O75132


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:0000977 RNA polymerase II regulatory region sequence-specific DNA binding GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding GO:0003677 DNA binding GO:0003700 transcription factor activity, sequence-specific DNA binding GO:0005515 protein binding GO:0046872 metal ion binding GO:0046983 protein dimerization activity Biological Process: GO:0006357 regulation of transcription from RNA polymerase II promoter Cellular Component: GO:0005634 nucleus GO:0005654 nucleoplasm GO:0005737 cytoplasm

Descriptions from all associated GenBank mRNAs


	LF385068 - JP 2014500723-A/192571: Polycomb-Associated Non-Coding RNAs. AB014537 - Homo sapiens KIAA0637 mRNA for KIAA0637 protein. BC167155 - Homo sapiens zinc finger, BED-type containing 4, mRNA (cDNA clone MGC:176685 IMAGE:8862564), complete cds. JD063570 - Sequence 44594 from Patent EP1572962. BC117670 - Homo sapiens zinc finger, BED-type containing 4, mRNA (cDNA clone MGC:134835 IMAGE:40038569), complete cds. BC117671 - Homo sapiens zinc finger, BED-type containing 4, mRNA (cDNA clone IMAGE:40038576). LF337555 - JP 2014500723-A/145058: Polycomb-Associated Non-Coding RNAs. JD332167 - Sequence 313191 from Patent EP1572962. LF209524 - JP 2014500723-A/17027: Polycomb-Associated Non-Coding RNAs. DQ599918 - Homo sapiens piRNA piR-37984, complete sequence. CR456387 - Homo sapiens bA494O16.1 full length open reading frame (ORF) cDNA clone (cDNA clone C22ORF:pGEM.bA494O16.1.V3). CU013234 - Homo sapiens ZBED4, mRNA (cDNA clone IMAGE:100000014), complete cds, without stop codon, in Gateway system. AB383930 - Synthetic construct DNA, clone: pF1KSDA0637, Homo sapiens ZBED4 gene for zinc finger BED domain-containing protein 4, complete cds, without stop codon, in Flexi system. KJ898110 - Synthetic construct Homo sapiens clone ccsbBroadEn_07504 ZBED4 gene, encodes complete protein. CU012946 - Homo sapiens ZBED4, mRNA (cDNA clone IMAGE:100000110), complete cds, with stop codon, in Gateway system. LF337556 - JP 2014500723-A/145059: Polycomb-Associated Non-Coding RNAs. LF329285 - JP 2014500723-A/136788: Polycomb-Associated Non-Coding RNAs. DQ577506 - Homo sapiens piRNA piR-45618, complete sequence. LF337557 - JP 2014500723-A/145060: Polycomb-Associated Non-Coding RNAs. LF329284 - JP 2014500723-A/136787: Polycomb-Associated Non-Coding RNAs. DQ589336 - Homo sapiens piRNA piR-56448, complete sequence. LF337558 - JP 2014500723-A/145061: Polycomb-Associated Non-Coding RNAs. LF329283 - JP 2014500723-A/136786: Polycomb-Associated Non-Coding RNAs. LF329282 - JP 2014500723-A/136785: Polycomb-Associated Non-Coding RNAs. LF337559 - JP 2014500723-A/145062: Polycomb-Associated Non-Coding RNAs. LF337560 - JP 2014500723-A/145063: Polycomb-Associated Non-Coding RNAs. LF329281 - JP 2014500723-A/136784: Polycomb-Associated Non-Coding RNAs. LF329280 - JP 2014500723-A/136783: Polycomb-Associated Non-Coding RNAs. LF337561 - JP 2014500723-A/145064: Polycomb-Associated Non-Coding RNAs. LF337562 - JP 2014500723-A/145065: Polycomb-Associated Non-Coding RNAs. LF329279 - JP 2014500723-A/136782: Polycomb-Associated Non-Coding RNAs. LF337563 - JP 2014500723-A/145066: Polycomb-Associated Non-Coding RNAs. LF329278 - JP 2014500723-A/136781: Polycomb-Associated Non-Coding RNAs. LF337564 - JP 2014500723-A/145067: Polycomb-Associated Non-Coding RNAs. LF329277 - JP 2014500723-A/136780: Polycomb-Associated Non-Coding RNAs. DQ585007 - Homo sapiens piRNA piR-52119, complete sequence. JD413271 - Sequence 394295 from Patent EP1572962. LF337565 - JP 2014500723-A/145068: Polycomb-Associated Non-Coding RNAs. LF329276 - JP 2014500723-A/136779: Polycomb-Associated Non-Coding RNAs. LF337566 - JP 2014500723-A/145069: Polycomb-Associated Non-Coding RNAs. LF329275 - JP 2014500723-A/136778: Polycomb-Associated Non-Coding RNAs. JD357318 - Sequence 338342 from Patent EP1572962. JD343897 - Sequence 324921 from Patent EP1572962. JD489614 - Sequence 470638 from Patent EP1572962. JD091021 - Sequence 72045 from Patent EP1572962. JD181959 - Sequence 162983 from Patent EP1572962. JD453687 - Sequence 434711 from Patent EP1572962. JD231740 - Sequence 212764 from Patent EP1572962. LF337567 - JP 2014500723-A/145070: Polycomb-Associated Non-Coding RNAs. LF329274 - JP 2014500723-A/136777: Polycomb-Associated Non-Coding RNAs. DQ580100 - Homo sapiens piRNA piR-48212, complete sequence. MA620645 - JP 2018138019-A/192571: Polycomb-Associated Non-Coding RNAs. MA564862 - JP 2018138019-A/136788: Polycomb-Associated Non-Coding RNAs. MA564861 - JP 2018138019-A/136787: Polycomb-Associated Non-Coding RNAs. MA564860 - JP 2018138019-A/136786: Polycomb-Associated Non-Coding RNAs. MA564859 - JP 2018138019-A/136785: Polycomb-Associated Non-Coding RNAs. MA564858 - JP 2018138019-A/136784: Polycomb-Associated Non-Coding RNAs. MA564857 - JP 2018138019-A/136783: Polycomb-Associated Non-Coding RNAs. MA564856 - JP 2018138019-A/136782: Polycomb-Associated Non-Coding RNAs. MA564855 - JP 2018138019-A/136781: Polycomb-Associated Non-Coding RNAs. MA564854 - JP 2018138019-A/136780: Polycomb-Associated Non-Coding RNAs. MA564853 - JP 2018138019-A/136779: Polycomb-Associated Non-Coding RNAs. MA564852 - JP 2018138019-A/136778: Polycomb-Associated Non-Coding RNAs. MA564851 - JP 2018138019-A/136777: Polycomb-Associated Non-Coding RNAs. MA573132 - JP 2018138019-A/145058: Polycomb-Associated Non-Coding RNAs. MA445101 - JP 2018138019-A/17027: Polycomb-Associated Non-Coding RNAs. MA573133 - JP 2018138019-A/145059: Polycomb-Associated Non-Coding RNAs. MA573134 - JP 2018138019-A/145060: Polycomb-Associated Non-Coding RNAs. MA573135 - JP 2018138019-A/145061: Polycomb-Associated Non-Coding RNAs. MA573136 - JP 2018138019-A/145062: Polycomb-Associated Non-Coding RNAs. MA573137 - JP 2018138019-A/145063: Polycomb-Associated Non-Coding RNAs. MA573138 - JP 2018138019-A/145064: Polycomb-Associated Non-Coding RNAs. MA573139 - JP 2018138019-A/145065: Polycomb-Associated Non-Coding RNAs. MA573140 - JP 2018138019-A/145066: Polycomb-Associated Non-Coding RNAs. MA573141 - JP 2018138019-A/145067: Polycomb-Associated Non-Coding RNAs. MA573142 - JP 2018138019-A/145068: Polycomb-Associated Non-Coding RNAs. MA573143 - JP 2018138019-A/145069: Polycomb-Associated Non-Coding RNAs. MA573144 - JP 2018138019-A/145070: Polycomb-Associated Non-Coding RNAs.

Other Names for This Gene


	Alternate Gene Symbols: B2RZH1, ENST00000216268.1, ENST00000216268.2, ENST00000216268.3, ENST00000216268.4, ENST00000216268.5, KIAA0637, NM_014838, O75132, Q1ECU0, Q9UGG8, uc317cpr.1, uc317cpr.2, ZBED4_HUMAN UCSC ID: ENST00000216268.6_4 RefSeq Accession: NM_014838.3 Protein: O75132 (aka ZBED4_HUMAN or ZBE4_HUMAN)

Gene Model Information


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Methods, Credits, and Use Restrictions


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