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ZNF620 zinc finger protein 620 [ Homo sapiens (human) ]

Gene ID: 253639, updated on 17-Jun-2024

Summary

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Official Symbol
ZNF620provided by HGNC
Official Full Name
zinc finger protein 620provided by HGNC
Primary source
HGNC:HGNC:28742
See related
Ensembl:ENSG00000177842 AllianceGenome:HGNC:28742
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Low expression observed in reference dataset See more
Orthologs
all
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Genomic context

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See ZNF620 in Genome Data Viewer
Location:
3p22.1
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (40506039..40518736)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (40517919..40533780)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (40547530..40560227)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19718 Neighboring gene zinc finger protein 619 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:40534545-40535044 Neighboring gene RNA, U5B small nuclear 2, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19719 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:40566421-40567233 Neighboring gene zinc finger protein 621 Neighboring gene uncharacterized LOC124909368

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Genomic annotation of 15,809 ESTs identified from pooled early gestation human eyes. Choy KW, et al. Physiol Genomics, 2006 Mar 13. PMID 16368877
  2. Human POGZ modulates dissociation of HP1alpha from mitotic chromosome arms through Aurora B activation. Nozawa RS, et al. Nat Cell Biol, 2010 Jul. PMID 20562864
  3. Cullin 3 Exon 9 Deletion in Familial Hyperkalemic Hypertension Impairs Cullin3-Ring-E3 Ligase (CRL3) Dynamic Regulation and Cycling. Kouranti I, et al. Int J Mol Sci, 2022 May 5. PMID 35563538, Free PMC Article
  4. OpenCell: Endogenous tagging for the cartography of human cellular organization. Cho NH, et al. Science, 2022 Mar 11. PMID 35271311, Free PMC Article
  5. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article

See all (11) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC50836

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
zinc finger protein 620

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001256167.2 → NP_001243096.1  zinc finger protein 620 isoform b

    See identical proteins and their annotated locations for NP_001243096.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two alternate exons in the 5' coding region and uses a downstream start codon, compared to variant 1. The encoded isoform (b) is shorter at the N-terminus, compared to isoform a. Both variants 2 and 3 encode isoform b.
    Source sequence(s)
    AC121754, AK093599, BC044953, BY800121, DA172830
    Consensus CDS
    CCDS58825.1
    UniProtKB/Swiss-Prot
    Q6ZNG0
    Related
    ENSP00000391472.1, ENST00000418905.1
    Conserved Domains (3) summary
    COG5048
    Location:108 → 252
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:196 → 216
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam13465
    Location:236 → 261
    zf-H2C2_2; Zinc-finger double domain

  2. NM_001256168.2 → NP_001243097.1  zinc finger protein 620 isoform b

    See identical proteins and their annotated locations for NP_001243097.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, lacks two alternate exons in the 5' coding region and uses a downstream start codon, compared to variant 1. The encoded isoform (b) is shorter at the N-terminus, compared to isoform a. Both variants 2 and 3 encode isoform b.
    Source sequence(s)
    AC121754, BC044953, BY800121, DA613081
    Consensus CDS
    CCDS58825.1
    UniProtKB/Swiss-Prot
    Q6ZNG0
    Conserved Domains (3) summary
    COG5048
    Location:108 → 252
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:196 → 216
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam13465
    Location:236 → 261
    zf-H2C2_2; Zinc-finger double domain

  3. NM_175888.4 → NP_787084.1  zinc finger protein 620 isoform a

    See identical proteins and their annotated locations for NP_787084.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (a).
    Source sequence(s)
    AC121754, AK131232, BC044953, BY800121
    Consensus CDS
    CCDS33740.1
    UniProtKB/Swiss-Prot
    Q6ZNG0, Q8N223
    Related
    ENSP00000322265.6, ENST00000314529.10
    Conserved Domains (5) summary
    smart00349
    Location:11 → 70
    KRAB; krueppel associated box
    COG5048
    Location:222 → 366
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:310 → 330
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:11 → 50
    KRAB; KRAB box
    pfam13465
    Location:350 → 375
    zf-H2C2_2; Zinc-finger double domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    40506039..40518736
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017006064.3 → XP_016861553.1  zinc finger protein 620 isoform X1

  2. XM_005265011.5 → XP_005265068.1  zinc finger protein 620 isoform X2

    See identical proteins and their annotated locations for XP_005265068.1

    UniProtKB/Swiss-Prot
    Q6ZNG0, Q8N223
    Conserved Domains (5) summary
    smart00349
    Location:11 → 70
    KRAB; krueppel associated box
    COG5048
    Location:222 → 366
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:310 → 330
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:11 → 50
    KRAB; KRAB box
    pfam13465
    Location:350 → 375
    zf-H2C2_2; Zinc-finger double domain

  3. XM_047447874.1 → XP_047303830.1  zinc finger protein 620 isoform X3

  4. XM_047447873.1 → XP_047303829.1  zinc finger protein 620 isoform X1

  5. XM_017006065.3 → XP_016861554.1  zinc finger protein 620 isoform X3

  6. XM_005265012.5 → XP_005265069.1  zinc finger protein 620 isoform X2

    See identical proteins and their annotated locations for XP_005265069.1

    UniProtKB/Swiss-Prot
    Q6ZNG0, Q8N223
    Conserved Domains (5) summary
    smart00349
    Location:11 → 70
    KRAB; krueppel associated box
    COG5048
    Location:222 → 366
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:310 → 330
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:11 → 50
    KRAB; KRAB box
    pfam13465
    Location:350 → 375
    zf-H2C2_2; Zinc-finger double domain

  7. XM_047447875.1 → XP_047303831.1  zinc finger protein 620 isoform X4

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    40517919..40533780
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054345958.1 → XP_054201933.1  zinc finger protein 620 isoform X2

    UniProtKB/Swiss-Prot
    Q6ZNG0, Q8N223

  2. XM_054345956.1 → XP_054201931.1  zinc finger protein 620 isoform X1

  3. XM_054345957.1 → XP_054201932.1  zinc finger protein 620 isoform X2

    UniProtKB/Swiss-Prot
    Q6ZNG0, Q8N223

  4. XM_054345960.1 → XP_054201935.1  zinc finger protein 620 isoform X3

  5. XM_054345955.1 → XP_054201930.1  zinc finger protein 620 isoform X1

  6. XM_054345959.1 → XP_054201934.1  zinc finger protein 620 isoform X3

  7. XM_054345961.1 → XP_054201936.1  zinc finger protein 620 isoform X4

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6ZNG0.1 GenPept UniProtKB/Swiss-Prot:Q6ZNG0

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