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Zkscan1 zinc finger with KRAB and SCAN domains 1 [ Mus musculus (house mouse) ]

Gene ID: 74570, updated on 5-Mar-2024

Summary

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Official Symbol
Zkscan1provided by MGI
Official Full Name
zinc finger with KRAB and SCAN domains 1provided by MGI
Primary source
MGI:MGI:1921820
See related
Ensembl:ENSMUSG00000029729 AllianceGenome:MGI:1921820
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
KOX18; PHZ-37; ZNF139; 5930429A01Rik; 9130423L19Rik; 9230118B16Rik
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 located in nucleus. Is expressed in early conceptus; genitourinary system; nervous system; and olfactory epithelium. Orthologous to human ZKSCAN1 (zinc finger with KRAB and SCAN domains 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 6.8), whole brain E14.5 (RPKM 6.1) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Zkscan1 in Genome Data Viewer
Location:
5 G2; 5 76.95 cM
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (138083312..138106084)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (138085050..138107822)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene sperm motility kinase 3B Neighboring gene sperm motility kinase 3C Neighboring gene STARR-positive B cell enhancer ABC_E8086 Neighboring gene zinc finger and SCAN domain containing 21 Neighboring gene zinc finger protein 113 Neighboring gene STARR-positive B cell enhancer ABC_E4799

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Short intronic repeat sequences facilitate circular RNA production. Liang D, et al. Genes Dev, 2014 Oct 15. PMID 25281217, Free PMC Article
  2. Prediction of the coding sequences of mouse homologues of FLJ genes: the complete nucleotide sequences of 110 mouse FLJ-homologous cDnas identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2004 Apr 30. PMID 15449545
  3. Transcription and Signaling Regulators in Developing Neuronal Subtypes of Mouse and Human Enteric Nervous System. Memic F, et al. Gastroenterology, 2018 Feb. PMID 29031500, Free PMC Article
  4. New roles for the de-ubiquitylating enzyme OTUD4 in an RNA-protein network and RNA granules. Das R, et al. J Cell Sci, 2019 Jun 17. PMID 31138677, Free PMC Article
  5. Resolution of cell fate decisions revealed by single-cell gene expression analysis from zygote to blastocyst. Guo G, et al. Dev Cell, 2010 Apr 20. PMID 20412781

See all (30) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC63357

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
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
  
Process Evidence Code Pubs
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
zinc finger protein with KRAB and SCAN domains 1
Names
zinc finger protein 36 (KOX 18)

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_029869.1 → NP_084145.1  zinc finger protein with KRAB and SCAN domains 1 isoform 2

    See identical proteins and their annotated locations for NP_084145.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and lacks two alternate exons in the 5' coding region, compared to variant 1. It encodes isoform 2, which lacks an internal in-frame segment and is shorter, compared to isoform 1.
    Source sequence(s)
    BC052441, BY282109, CAAA01224679
    Consensus CDS
    CCDS19788.1
    UniProtKB/Swiss-Prot
    Q8BGS3
    Related
    ENSMUSP00000106588.2, ENSMUST00000110963.8
    Conserved Domains (3) summary
    smart00431
    Location:52 → 162
    SCAN; leucine rich region
    COG5048
    Location:281 → 462
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:332 → 352
    ZF_C2H2; C2H2 Zn finger [structural motif]

  2. NM_133906.4 → NP_598667.2  zinc finger protein with KRAB and SCAN domains 1 isoform 1

    See identical proteins and their annotated locations for NP_598667.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AK036807, AK054323, BY282109, CAAA01224679
    Consensus CDS
    CCDS19789.1
    UniProtKB/Swiss-Prot
    Q7TS88, Q8BGS3, Q8BJ55, Q9CRN6
    Related
    ENSMUSP00000019660.5, ENSMUST00000019660.11
    Conserved Domains (7) summary
    smart00431
    Location:52 → 162
    SCAN; leucine rich region
    COG5048
    Location:354 → 535
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:405 → 425
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:375 → 397
    zf-C2H2; Zinc finger, C2H2 type
    pfam01352
    Location:225 → 263
    KRAB; KRAB box
    pfam02023
    Location:52 → 129
    SCAN; SCAN domain
    pfam13465
    Location:473 → 498
    zf-H2C2_2; Zinc-finger double domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000071.7 Reference GRCm39 C57BL/6J

    Range
    138083312..138106084
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006504628.4 → XP_006504691.1  zinc finger protein with KRAB and SCAN domains 1 isoform X1

    See identical proteins and their annotated locations for XP_006504691.1

    UniProtKB/Swiss-Prot
    Q8BGS3
    Related
    ENSMUSP00000068480.6, ENSMUST00000066617.12
    Conserved Domains (3) summary
    smart00431
    Location:52 → 162
    SCAN; leucine rich region
    COG5048
    Location:281 → 462
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:332 → 352
    ZF_C2H2; C2H2 Zn finger [structural motif]

  2. XM_011240958.3 → XP_011239260.1  zinc finger protein with KRAB and SCAN domains 1 isoform X2

    Conserved Domains (3) summary
    COG5048
    Location:143 → 324
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:194 → 214
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:13 → 54
    KRAB; KRAB box
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8BGS3.1 GenPept UniProtKB/Swiss-Prot:Q8BGS3

Gene LinkOut

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