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    ZKSCAN4 zinc finger with KRAB and SCAN domains 4 [ Homo sapiens (human) ]

    Gene ID: 387032, updated on 17-Jun-2024

    Summary

    Official Symbol
    ZKSCAN4provided by HGNC
    Official Full Name
    zinc finger with KRAB and SCAN domains 4provided by HGNC
    Primary source
    HGNC:HGNC:13854
    See related
    Ensembl:ENSG00000187626 MIM:611643; AllianceGenome:HGNC:13854
    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
    ZNF307; ZNF427; ZSCAN36; P1P373C6
    Summary
    Enables identical protein binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Located in nucleoplasm. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in testis (RPKM 2.9), spleen (RPKM 2.1) and 24 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See ZKSCAN4 in Genome Data Viewer
    Location:
    6p22.1
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (28241697..28259211, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (28113435..28131010, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (28209475..28226989, complement)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene ReSE screen-validated silencer GRCh37_chr6:28184762-28184955 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24348 Neighboring gene transducer of ERBB2, 2 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24349 Neighboring gene zinc finger and SCAN domain containing 9 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr6:28203630-28204444 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17042 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24350 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24351 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17043 Neighboring gene NFKB activating protein like Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24352 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:28234963-28235527 Neighboring gene zinc finger and SCAN domain containing 26

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    Genome-wide association study identifies a susceptibility locus for schizophrenia in Han Chinese at 11p11.2.
    EBI GWAS Catalog

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ32136

    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 identical protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    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
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     

    General protein information

    Preferred Names
    zinc finger protein with KRAB and SCAN domains 4
    Names
    p373c6.1 (novel C2H2 type zinc finger protein)
    zinc finger protein 307
    zinc finger protein 427

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001304506.2NP_001291435.1  zinc finger protein with KRAB and SCAN domains 4 isoform 2

      See identical proteins and their annotated locations for NP_001291435.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate 5'-terminal exon and a downstream in-frame start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus compared to isoform 1.
      Source sequence(s)
      AK302017, AL022393
      UniProtKB/TrEMBL
      B7Z7H3, C9JSR9
      Conserved Domains (6) summary
      smart00349
      Location:66126
      KRAB; krueppel associated box
      COG5048
      Location:219389
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:223243
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:165187
      zf-C2H2; Zinc finger, C2H2 type
      pfam01352
      Location:69104
      KRAB; KRAB box
      pfam13465
      Location:235260
      zf-H2C2_2; Zinc-finger double domain
    2. NM_019110.5NP_061983.2  zinc finger protein with KRAB and SCAN domains 4 isoform 1

      See identical proteins and their annotated locations for NP_061983.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AL022393, AY781778, HY070446
      Consensus CDS
      CCDS4647.1
      UniProtKB/Swiss-Prot
      B2RE32, Q5U7L4, Q969J2
      UniProtKB/TrEMBL
      A0A0S2Z658
      Related
      ENSP00000366509.2, ENST00000377294.3
      Conserved Domains (6) summary
      smart00431
      Location:49160
      SCAN; leucine rich region
      smart00349
      Location:221281
      KRAB; krueppel associated box
      COG5048
      Location:374544
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:378398
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:320342
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:335357
      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_000006.12 Reference GRCh38.p14 Primary Assembly

      Range
      28241697..28259211 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047418753.1XP_047274709.1  zinc finger protein with KRAB and SCAN domains 4 isoform X5

      UniProtKB/TrEMBL
      B7Z7H3, C9JSR9
    2. XM_047418754.1XP_047274710.1  zinc finger protein with KRAB and SCAN domains 4 isoform X4

    3. XM_005249095.4XP_005249152.1  zinc finger protein with KRAB and SCAN domains 4 isoform X1

      See identical proteins and their annotated locations for XP_005249152.1

      UniProtKB/Swiss-Prot
      B2RE32, Q5U7L4, Q969J2
      UniProtKB/TrEMBL
      A0A0S2Z658
      Conserved Domains (6) summary
      smart00431
      Location:49160
      SCAN; leucine rich region
      smart00349
      Location:221281
      KRAB; krueppel associated box
      COG5048
      Location:374544
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:378398
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:320342
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:335357
      zf-H2C2_2; Zinc-finger double domain
    4. XM_005249098.4XP_005249155.1  zinc finger protein with KRAB and SCAN domains 4 isoform X3

      See identical proteins and their annotated locations for XP_005249155.1

      Conserved Domains (5) summary
      smart00349
      Location:118178
      KRAB; krueppel associated box
      COG5048
      Location:271441
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:275295
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:217239
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:232254
      zf-H2C2_2; Zinc-finger double domain
    5. XM_011514588.4XP_011512890.1  zinc finger protein with KRAB and SCAN domains 4 isoform X2

      Conserved Domains (8) summary
      smart00431
      Location:49131
      SCAN; leucine rich region
      smart00349
      Location:192252
      KRAB; krueppel associated box
      COG5048
      Location:345515
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:349369
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:347369
      zf-C2H2; Zinc finger, C2H2 type
      pfam01352
      Location:195230
      KRAB; KRAB box
      pfam02023
      Location:49113
      SCAN; SCAN domain
      pfam13465
      Location:361386
      zf-H2C2_2; Zinc-finger double domain
    6. XM_011514589.3XP_011512891.1  zinc finger protein with KRAB and SCAN domains 4 isoform X5

      See identical proteins and their annotated locations for XP_011512891.1

      UniProtKB/TrEMBL
      B7Z7H3, C9JSR9
      Conserved Domains (6) summary
      smart00349
      Location:66126
      KRAB; krueppel associated box
      COG5048
      Location:219389
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:223243
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:165187
      zf-C2H2; Zinc finger, C2H2 type
      pfam01352
      Location:69104
      KRAB; KRAB box
      pfam13465
      Location:235260
      zf-H2C2_2; Zinc-finger double domain
    7. XM_047418755.1XP_047274711.1  zinc finger protein with KRAB and SCAN domains 4 isoform X5

      UniProtKB/TrEMBL
      B7Z7H3, C9JSR9

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      28113435..28131010 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054355386.1XP_054211361.1  zinc finger protein with KRAB and SCAN domains 4 isoform X6

    2. XM_054355390.1XP_054211365.1  zinc finger protein with KRAB and SCAN domains 4 isoform X4

    3. XM_054355387.1XP_054211362.1  zinc finger protein with KRAB and SCAN domains 4 isoform X1

      UniProtKB/Swiss-Prot
      B2RE32, Q5U7L4, Q969J2
      UniProtKB/TrEMBL
      A0A0S2Z658
    4. XM_054355389.1XP_054211364.1  zinc finger protein with KRAB and SCAN domains 4 isoform X3

    5. XM_054355388.1XP_054211363.1  zinc finger protein with KRAB and SCAN domains 4 isoform X2

    6. XM_054355392.1XP_054211367.1  zinc finger protein with KRAB and SCAN domains 4 isoform X5

      UniProtKB/TrEMBL
      B7Z7H3, C9JSR9
    7. XM_054355391.1XP_054211366.1  zinc finger protein with KRAB and SCAN domains 4 isoform X5

      UniProtKB/TrEMBL
      B7Z7H3, C9JSR9