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ZKSCAN7 zinc finger with KRAB and SCAN domains 7 [ Homo sapiens (human) ]

Gene ID: 55888, updated on 2-Nov-2024

Summary

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Official Symbol
ZKSCAN7provided by HGNC
Official Full Name
zinc finger with KRAB and SCAN domains 7provided by HGNC
Primary source
HGNC:HGNC:12955
See related
Ensembl:ENSG00000196345 AllianceGenome:HGNC:12955
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
Also known as
ZFP; ZNF64; ZNF167; ZNF448; ZSCAN39
Summary
Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in ovary (RPKM 2.4), testis (RPKM 2.0) and 25 other tissues See more
Orthologs
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Genomic context

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See ZKSCAN7 in Genome Data Viewer
Location:
3p21.31
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (44555193..44583483)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (44570938..44599205)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (44596685..44624975)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene zinc finger protein 852 pseudogene Neighboring gene Sharpr-MPRA regulatory region 15293 Neighboring gene EI24 pseudogene 3 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14268 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14269 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:44598251-44598752 Neighboring gene ZKSCAN7 ZNF cluster antisense RNA 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:44622134-44622634 Neighboring gene ZNF660-ZNF197 readthrough Neighboring gene myosin phosphatase Rho interacting protein pseudogene 1 Neighboring gene zinc finger protein 660 Neighboring gene ZNF197 antisense RNA 1

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 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. Positional cloning of cDNAs from the human chromosome 3p21-22 region identifies a clustered organization of zinc-finger genes. Calabrò V, et al. Hum Genet, 1995 Jan. PMID 7814019
  2. Clustering of C2-H2 zinc finger motif sequences within telomeric and fragile site regions of human chromosomes. Lichter P, et al. Genomics, 1992 Aug. PMID 1505991
  3. Characterization and mapping of human genes encoding zinc finger proteins. Bray P, et al. Proc Natl Acad Sci U S A, 1991 Nov 1. PMID 1946370, Free PMC Article
  4. PAK4 promotes kinase-independent stabilization of RhoU to modulate cell adhesion. Dart AE, et al. J Cell Biol, 2015 Nov 23. PMID 26598620, Free PMC Article
  5. Interaction proteomics analysis of polycomb proteins defines distinct PRC1 complexes in mammalian cells. Vandamme J, et al. Mol Cell Proteomics, 2011 Apr. PMID 21282530, Free PMC Article

See all (19) 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)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ12738

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 cis-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 with KRAB and SCAN domains 7
Names
zinc finger protein 167
zinc finger protein 448
zinc finger protein 64

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_001288590.2 → NP_001275519.1  zinc finger protein with KRAB and SCAN domains 7 isoform 1

    See identical proteins and their annotated locations for NP_001275519.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1 and 3 both encode the same isoform (1).
    Source sequence(s)
    AK291285, AY280798
    Consensus CDS
    CCDS2715.1
    UniProtKB/Swiss-Prot
    A0PJV3, A8K5H0, Q6WL09, Q96FQ2, Q9P0L1
    Related
    ENSP00000395524.1, ENST00000426540.6
    Conserved Domains (7) summary
    smart00431
    Location:51 → 161
    SCAN; leucine rich region
    cd07765
    Location:231 → 270
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    COG5048
    Location:380 → 738
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:637 → 657
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:383 → 405
    zf-C2H2; Zinc finger, C2H2 type
    pfam02023
    Location:51 → 138
    SCAN; SCAN domain
    pfam13465
    Location:677 → 701
    zf-H2C2_2; Zinc-finger double domain

  2. NM_001288591.2 → NP_001275520.1  zinc finger protein with KRAB and SCAN domains 7 isoform 2

    See identical proteins and their annotated locations for NP_001275520.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct C-terminus compared to isoform 1. Variants 2 and 4 both encode the same isoform (2).
    Source sequence(s)
    AC099669, AK291285, BC010555, BC063020, BC120982
    Consensus CDS
    CCDS2714.1
    UniProtKB/TrEMBL
    Q0VAN9
    Related
    ENSP00000416681.1, ENST00000431636.5
    Conserved Domains (3) summary
    smart00431
    Location:51 → 161
    SCAN; leucine rich region
    cd07765
    Location:231 → 270
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    pfam02023
    Location:51 → 138
    SCAN; SCAN domain

  3. NM_001288592.2 → NP_001275521.1  zinc finger protein with KRAB and SCAN domains 7 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) has multiple differences in the 5' UTR, 3' UTR, and coding sequence compared to variant 1. The resulting isoform (3) is shorter at the N-terminus, lacks a single internal aa, and has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AC099669, AK291285, BC010555, BC148260
    Consensus CDS
    CCDS74924.1
    UniProtKB/TrEMBL
    C9J6L6
    Related
    ENSP00000405034.1, ENST00000447279.2
    Conserved Domains (5) summary
    cd07765
    Location:81 → 120
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    COG5048
    Location:229 → 291
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:234 → 254
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:232 → 254
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:250 → 271
    zf-H2C2_2; Zinc-finger double domain

  4. NM_018651.4 → NP_061121.2  zinc finger protein with KRAB and SCAN domains 7 isoform 1

    See identical proteins and their annotated locations for NP_061121.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1). Variants 1 and 3 both encode the same isoform (1).
    Source sequence(s)
    AY280798, DA787920
    Consensus CDS
    CCDS2715.1
    UniProtKB/Swiss-Prot
    A0PJV3, A8K5H0, Q6WL09, Q96FQ2, Q9P0L1
    Related
    ENSP00000273320.3, ENST00000273320.7
    Conserved Domains (7) summary
    smart00431
    Location:51 → 161
    SCAN; leucine rich region
    cd07765
    Location:231 → 270
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    COG5048
    Location:380 → 738
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:637 → 657
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:383 → 405
    zf-C2H2; Zinc finger, C2H2 type
    pfam02023
    Location:51 → 138
    SCAN; SCAN domain
    pfam13465
    Location:677 → 701
    zf-H2C2_2; Zinc-finger double domain

  5. NM_025169.3 → NP_079445.1  zinc finger protein with KRAB and SCAN domains 7 isoform 2

    See identical proteins and their annotated locations for NP_079445.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct C-terminus compared to isoform 1. Variants 2 and 4 both encode the same isoform (2).
    Source sequence(s)
    AC099669, BC010555, BC063020, DA787920
    Consensus CDS
    CCDS2714.1
    UniProtKB/TrEMBL
    Q0VAN9
    Related
    ENSP00000345404.3, ENST00000341840.7
    Conserved Domains (3) summary
    smart00431
    Location:51 → 161
    SCAN; leucine rich region
    cd07765
    Location:231 → 270
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    pfam02023
    Location:51 → 138
    SCAN; SCAN domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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
    44555193..44583483
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047448582.1 → XP_047304538.1  zinc finger protein with KRAB and SCAN domains 7 isoform X3

  2. XM_047448581.1 → XP_047304537.1  zinc finger protein with KRAB and SCAN domains 7 isoform X3

  3. XM_047448579.1 → XP_047304535.1  zinc finger protein with KRAB and SCAN domains 7 isoform X1

  4. XM_047448578.1 → XP_047304534.1  zinc finger protein with KRAB and SCAN domains 7 isoform X1

  5. XM_047448580.1 → XP_047304536.1  zinc finger protein with KRAB and SCAN domains 7 isoform X2

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_009646197.1 Reference GRCh38.p14 PATCHES

    Range
    80547..108837
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054331545.1 → XP_054187520.1  zinc finger protein with KRAB and SCAN domains 7 isoform X3

  2. XM_054331543.1 → XP_054187518.1  zinc finger protein with KRAB and SCAN domains 7 isoform X1

  3. XM_054331542.1 → XP_054187517.1  zinc finger protein with KRAB and SCAN domains 7 isoform X1

  4. XM_054331544.1 → XP_054187519.1  zinc finger protein with KRAB and SCAN domains 7 isoform X2

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    44570938..44599205
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054347263.1 → XP_054203238.1  zinc finger protein with KRAB and SCAN domains 7 isoform X3

  2. XM_054347261.1 → XP_054203236.1  zinc finger protein with KRAB and SCAN domains 7 isoform X1

  3. XM_054347260.1 → XP_054203235.1  zinc finger protein with KRAB and SCAN domains 7 isoform X1

  4. XM_054347262.1 → XP_054203237.1  zinc finger protein with KRAB and SCAN domains 7 isoform X2

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9P0L1.2 GenPept UniProtKB/Swiss-Prot:Q9P0L1

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