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

Gene ID: 52712, updated on 5-Mar-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 brain; early conceptus; and genitourinary system. Orthologous to human ZNF18 (zinc finger protein 18). [provided by Alliance of Genome Resources, Apr 2022]
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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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 (23) 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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