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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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