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    Zkscan6 zinc finger with KRAB and SCAN domains 6 [ Mus musculus (house mouse) ]

    Gene ID: 52712, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Zkscan6provided by MGI
    Official Full Name
    zinc finger with KRAB and SCAN domains 6provided by MGI
    Primary source
    MGI:MGI:1289293
    See related
    Ensembl:ENSMUSG00000018347 AllianceGenome:MGI:1289293
    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
    KOX11; Znf18; Zfp535; D11Ertd714e; 1700128E15Rik
    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 central nervous system; early conceptus; and genitourinary system. Orthologous to human ZNF18 (zinc finger protein 18). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in testis adult (RPKM 3.6), CNS E18 (RPKM 2.9) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Zkscan6 in Genome Data Viewer
    Location:
    11 B3; 11 40.53 cM
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (65697980..65720065)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (65807154..65829239)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene mitogen-activated protein kinase kinase 4 Neighboring gene STARR-seq mESC enhancer starr_29772 Neighboring gene microRNA 744 Neighboring gene predicted gene, 53682 Neighboring gene dynein, axonemal, heavy chain 9 Neighboring gene STARR-seq mESC enhancer starr_29773 Neighboring gene STARR-seq mESC enhancer starr_29774 Neighboring gene predicted gene, 40027 Neighboring gene predicted gene 12296 Neighboring gene shisa family member 6 Neighboring gene predicted gene, 45945

    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. Identification of candidate maternal-effect genes through comparison of multiple microarray data sets. Mager J, et al. Mamm Genome, 2006 Sep. PMID 16964442
    2. 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
    3. A systems approach reveals that the myogenesis genome network is regulated by the transcriptional repressor RP58. Yokoyama S, et al. Dev Cell, 2009 Dec. PMID 20059953, Free PMC Article
    4. Database resources of the National Center for Biotechnology Information. Wheeler DL, et al. Nucleic Acids Res, 2001 Jan 1. PMID 11125038, Free PMC Article
    5. Mouse brain organization revealed through direct genome-scale TF expression analysis. Gray PA, et al. Science, 2004 Dec 24. PMID 15618518

    See all (24) 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 (2) 

    General gene information

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    Markers

    Homology

    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 18
    Names
    zinc finger protein 535
    zinc finger protein with KRAB and SCAN domains 6

    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_001302374.1 → NP_001289303.1  zinc finger protein 18 isoform 1

      See identical proteins and their annotated locations for NP_001289303.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same isoform (1).
      Source sequence(s)
      AK007308, AL596025, BC043075, BY224975
      Consensus CDS
      CCDS24845.1
      UniProtKB/Swiss-Prot
      Q810A1, Q9D972
      Related
      ENSMUSP00000071406.3, ENSMUST00000071465.9
      Conserved Domains (4) summary
      COG5048
      Location:428 → 541
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:473 → 493
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cl02581
      Location:229 → 278
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      cl02605
      Location:37 → 144
      SCAN; SCAN oligomerization domain

    2. NM_001302375.1 → NP_001289304.1  zinc finger protein 18 isoform 2

      See identical proteins and their annotated locations for NP_001289304.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and uses an alternate splice site in the central coding region compared to variant 1. The encoded isoform (2) is shorter compared to isoform 1.
      Source sequence(s)
      AK007308, AL596025, BC043075, BY224975
      UniProtKB/Swiss-Prot
      Q810A1
      Conserved Domains (4) summary
      COG5048
      Location:427 → 540
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:472 → 492
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cl02581
      Location:229 → 277
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      cl02605
      Location:37 → 144
      SCAN; SCAN oligomerization domain

    3. NM_001362834.1 → NP_001349763.1  zinc finger protein 18 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AI646524, AL596025
      Conserved Domains (4) summary
      COG5048
      Location:427 → 540
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:472 → 492
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cl02581
      Location:229 → 277
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      cl02605
      Location:37 → 144
      SCAN; SCAN oligomerization domain

    4. NM_026107.3 → NP_080383.2  zinc finger protein 18 isoform 1

      See identical proteins and their annotated locations for NP_080383.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1). Both variants 1 and 2 encode the same isoform (1).
      Source sequence(s)
      AK007308, BC043075, BY224975
      Consensus CDS
      CCDS24845.1
      UniProtKB/Swiss-Prot
      Q810A1, Q9D972
      Related
      ENSMUSP00000018491.8, ENSMUST00000018491.8
      Conserved Domains (4) summary
      COG5048
      Location:428 → 541
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:473 → 493
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cl02581
      Location:229 → 278
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      cl02605
      Location:37 → 144
      SCAN; SCAN oligomerization 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_000077.7 Reference GRCm39 C57BL/6J

      Range
      65697980..65720065
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036156836.1 → XP_036012729.1  zinc finger protein 18 isoform X5

      Conserved Domains (4) summary
      COG5048
      Location:235 → 328
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:280 → 300
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:320 → 344
      zf-H2C2_2; Zinc-finger double domain
      cl02581
      Location:36 → 85
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box

    2. XM_030246129.1 → XP_030101989.1  zinc finger protein 18 isoform X6

      Conserved Domains (4) summary
      COG5048
      Location:234 → 327
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:279 → 299
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:319 → 343
      zf-H2C2_2; Zinc-finger double domain
      cl02581
      Location:36 → 84
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box

    3. XM_036156833.1 → XP_036012726.1  zinc finger protein 18 isoform X2

      Conserved Domains (4) summary
      COG5048
      Location:427 → 540
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:472 → 492
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cl02581
      Location:229 → 278
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      cl02605
      Location:37 → 144
      SCAN; SCAN oligomerization domain

    4. XM_036156834.1 → XP_036012727.1  zinc finger protein 18 isoform X3

      Conserved Domains (4) summary
      COG5048
      Location:426 → 539
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:471 → 491
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cl02581
      Location:229 → 277
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      cl02605
      Location:37 → 144
      SCAN; SCAN oligomerization domain

    5. XM_036156835.1 → XP_036012728.1  zinc finger protein 18 isoform X4

      Conserved Domains (4) summary
      cd07765
      Location:229 → 256
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      COG5048
      Location:390 → 503
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:435 → 455
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cl02605
      Location:37 → 144
      SCAN; SCAN oligomerization domain

    6. XM_006533717.5 → XP_006533780.1  zinc finger protein 18 isoform X1

      See identical proteins and their annotated locations for XP_006533780.1

      UniProtKB/Swiss-Prot
      Q810A1, Q9D972
      Conserved Domains (4) summary
      COG5048
      Location:428 → 541
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:473 → 493
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cl02581
      Location:229 → 278
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      cl02605
      Location:37 → 144
      SCAN; SCAN oligomerization domain

    7. XM_030246128.1 → XP_030101988.1  zinc finger protein 18 isoform X5

      Conserved Domains (4) summary
      COG5048
      Location:235 → 328
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:280 → 300
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:320 → 344
      zf-H2C2_2; Zinc-finger double domain
      cl02581
      Location:36 → 85
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box

    8. XM_036156837.1 → XP_036012730.1  zinc finger protein 18 isoform X7

      Conserved Domains (3) summary
      COG5048
      Location:182 → 275
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:227 → 247
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:267 → 291
      zf-H2C2_2; Zinc-finger double domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q810A1.1 GenPept UniProtKB/Swiss-Prot:Q810A1

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