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    Zkscan17 zinc finger with KRAB and SCAN domains 17 [ Mus musculus (house mouse) ]

    Gene ID: 268417, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Zkscan17provided by MGI
    Official Full Name
    zinc finger with KRAB and SCAN domains 17provided by MGI
    Primary source
    MGI:MGI:2679270
    See related
    Ensembl:ENSMUSG00000020472 AllianceGenome:MGI:2679270
    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
    Nizp1; Zfp496; Znf496
    Summary
    Enables DNA binding activity and protein self-association. Involved in positive regulation of transcription, DNA-templated. Acts upstream of or within negative regulation of transcription by RNA polymerase II. Located in nuclear body. Is expressed in several structures, including early conceptus; genitourinary system; liver; lung; and spleen. Orthologous to human ZNF496 (zinc finger protein 496). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in testis adult (RPKM 32.5), ovary adult (RPKM 10.5) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    11 B1.3; 11 37.72 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (59376346..59397466, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (59485520..59506640, complement)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_29624 Neighboring gene jumonji domain containing 4 Neighboring gene zinc finger protein 867 Neighboring gene ariadne homolog 2 pseudogene Neighboring gene RIKEN cDNA 4933439C10 gene Neighboring gene NLR family, pyrin domain containing 3 Neighboring gene olfactory receptor family 2 subfamily B member 11

    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. Nizp1 zinc finger protein localization is determined by SCAN-domain inclusion regulated through alternative splicing. Kahns S, et al. Biochim Biophys Acta, 2010 Aug. PMID 20538088
    2. Characterization of zinc finger protein 496 that interacts with Jumonji/Jarid2. Mysliwiec MR, et al. FEBS Lett, 2007 Jun 12. PMID 17521633, Free PMC Article
    3. Nizp1, a novel multitype zinc finger protein that interacts with the NSD1 histone lysine methyltransferase through a unique C2HR motif. Nielsen AL, et al. Mol Cell Biol, 2004 Jun. PMID 15169884, Free PMC Article
    4. Characterization of the zinc-induced Shank3 interactome of mouse synaptosome. Lee Y, et al. Biochem Biophys Res Commun, 2017 Dec 16. PMID 29111324
    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 (25) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. a novel NSD1-interacting protein(Nizp1)
      Title: Nizp1, a novel multitype zinc finger protein that interacts with the NSD1 histone lysine methyltransferase through a unique C2HR motif.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (2) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC36538, D130067D09

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in positive regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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 IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    zinc finger protein 496
    Names
    NSD1-interacting zinc finger protein 1
    zinc finger protein with KRAB and SCAN domains 17

    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_001130529.2 → NP_001124001.1  zinc finger protein 496 isoform 2

      See identical proteins and their annotated locations for NP_001124001.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in its 5' UTR and uses a downstream start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus, compared to isoform 1.
      Source sequence(s)
      AK051711, BE988762, CB528232, CN530086
      UniProtKB/Swiss-Prot
      Q5SXI5
      Conserved Domains (4) summary
      cd07765
      Location:201 → 229
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      COG5048
      Location:317 → 553
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:387 → 407
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam02023
      Location:30 → 106
      SCAN; SCAN domain

    2. NM_001291014.1 → NP_001277943.1  zinc finger protein 496 isoform 3

      See identical proteins and their annotated locations for NP_001277943.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in its 5' UTR and uses a downstream start codon, compared to variant 1. The encoded isoform (3) has a shorter N-terminus, compared to isoform 1.
      Source sequence(s)
      AK051711, BE988762, CB528232
      Consensus CDS
      CCDS70197.1
      UniProtKB/Swiss-Prot
      Q5SXI5
      Related
      ENSMUSP00000098709.3, ENSMUST00000101150.9
      Conserved Domains (4) summary
      cd07765
      Location:65 → 93
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      COG5048
      Location:181 → 417
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:251 → 271
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:305 → 327
      zf-C2H2; Zinc finger, C2H2 type

    3. NM_172941.4 → NP_766529.3  zinc finger protein 496 isoform 1

      See identical proteins and their annotated locations for NP_766529.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AK051711, BE988762, CB528232, CN530086
      Consensus CDS
      CCDS24770.1
      UniProtKB/Swiss-Prot
      Q3TC40, Q3UTL1, Q5SXI5, Q8BKK0, Q8CGF9
      Related
      ENSMUSP00000013262.9, ENSMUST00000013262.15
      Conserved Domains (4) summary
      COG5048
      Location:337 → 573
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:407 → 427
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam02023
      Location:50 → 124
      SCAN; SCAN domain
      cl02581
      Location:221 → 249
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box

    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
      59376346..59397466 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030246032.1 → XP_030101892.1  zinc finger protein 496 isoform X5

      Conserved Domains (4) summary
      cd07765
      Location:65 → 93
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      COG5048
      Location:181 → 417
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:251 → 271
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:305 → 327
      zf-C2H2; Zinc finger, C2H2 type

    2. XM_006533385.3 → XP_006533448.1  zinc finger protein 496 isoform X2

      Conserved Domains (4) summary
      cd07765
      Location:221 → 249
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      COG5048
      Location:335 → 572
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:406 → 426
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam02023
      Location:50 → 126
      SCAN; SCAN domain

    3. XM_030246030.1 → XP_030101890.1  zinc finger protein 496 isoform X3

      Conserved Domains (4) summary
      cd07765
      Location:201 → 229
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      COG5048
      Location:315 → 552
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:386 → 406
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam02023
      Location:30 → 106
      SCAN; SCAN domain

    4. XM_030246033.1 → XP_030101893.1  zinc finger protein 496 isoform X6

      Conserved Domains (4) summary
      cd07765
      Location:65 → 93
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      COG5048
      Location:179 → 416
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:250 → 270
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:304 → 326
      zf-C2H2; Zinc finger, C2H2 type

    5. XM_030246031.1 → XP_030101891.1  zinc finger protein 496 isoform X3

      Conserved Domains (4) summary
      cd07765
      Location:201 → 229
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      COG5048
      Location:315 → 552
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:386 → 406
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam02023
      Location:30 → 106
      SCAN; SCAN domain

    6. XM_036156713.1 → XP_036012606.1  zinc finger protein 496 isoform X1

      UniProtKB/Swiss-Prot
      Q3TC40, Q3UTL1, Q5SXI5, Q8BKK0, Q8CGF9
      Conserved Domains (4) summary
      COG5048
      Location:337 → 573
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:407 → 427
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam02023
      Location:50 → 124
      SCAN; SCAN domain
      cl02581
      Location:221 → 249
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box

    7. XM_006533384.5 → XP_006533447.1  zinc finger protein 496 isoform X1

      See identical proteins and their annotated locations for XP_006533447.1

      UniProtKB/Swiss-Prot
      Q3TC40, Q3UTL1, Q5SXI5, Q8BKK0, Q8CGF9
      Conserved Domains (4) summary
      COG5048
      Location:337 → 573
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:407 → 427
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam02023
      Location:50 → 124
      SCAN; SCAN domain
      cl02581
      Location:221 → 249
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box

    8. XM_006533386.5 → XP_006533449.1  zinc finger protein 496 isoform X4

      See identical proteins and their annotated locations for XP_006533449.1

      UniProtKB/Swiss-Prot
      Q5SXI5
      Conserved Domains (4) summary
      cd07765
      Location:201 → 229
      KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
      COG5048
      Location:317 → 553
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:387 → 407
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam02023
      Location:30 → 106
      SCAN; SCAN domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5SXI5.1 GenPept UniProtKB/Swiss-Prot:Q5SXI5

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