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

    Gene ID: 74570, updated on 2-Nov-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, Nov 2024]
    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 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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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