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    ZSCAN16 zinc finger and SCAN domain containing 16 [ Homo sapiens (human) ]

    Gene ID: 80345, updated on 5-Mar-2024

    Summary

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    Official Symbol
    ZSCAN16provided by HGNC
    Official Full Name
    zinc finger and SCAN domain containing 16provided by HGNC
    Primary source
    HGNC:HGNC:20813
    See related
    Ensembl:ENSG00000196812 MIM:618544; AllianceGenome:HGNC:20813
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    ZNF392; ZNF435; dJ265C24.3
    Summary
    Enables sequence-specific double-stranded DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in duodenum (RPKM 2.1), small intestine (RPKM 2.0) and 25 other tissues See more
    Orthologs
    all
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    Genomic context

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    See ZSCAN16 in Genome Data Viewer
    Location:
    6p22.1
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (28124609..28130082)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (27994629..28000107)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (28092387..28097860)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene zinc finger protein 601, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24343 Neighboring gene MPRA-validated peak5744 silencer Neighboring gene zinc finger protein 602, pseudogene Neighboring gene ZSCAN16 antisense RNA 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:28092031-28092532 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24344 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24345 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24346 Neighboring gene zinc finger with KRAB and SCAN domains 8 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24347 Neighboring gene ZKSCAN8 pseudogene 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. ZSCAN16 promotes proliferation, migration and invasion of bladder cancer via regulating NF-kB, AKT, mTOR, P38 and other genes. Li X, et al. Biomed Pharmacother, 2020 Jun. PMID 32172065
    2. ZNF435, a novel human SCAN-containing zinc finger protein, inhibits AP-1-mediated transcriptional activation. Gu X, et al. Mol Cells, 2007 Jun 30. PMID 17646705
    3. Genome-scale RNAi screen for host factors required for HIV replication. Zhou H, et al. Cell Host Microbe, 2008 Nov 13. PMID 18976975
    4. DCAF8, a novel MuRF1 interaction partner, promotes muscle atrophy. Nowak M, et al. J Cell Sci, 2019 Sep 6. PMID 31391242
    5. Identification of intrahepatic cholangiocarcinoma related genes by comparison with normal liver tissues using expressed sequence tags. Wang AG, et al. Biochem Biophys Res Commun, 2006 Jul 7. PMID 16712791

    See all (22) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. ZSCAN16 promotes proliferation, migration and invasion of bladder cancer via regulating NF-kB, AKT, mTOR, P38 and other genes.
      Title: ZSCAN16 promotes proliferation, migration and invasion of bladder cancer via regulating NF-kB, AKT, mTOR, P38 and other genes.
    2. ZNF435 proved to be a transcription repressor as its overexpression in AD293 cells inhibited the transcriptional activities of AP-1.
      Title: ZNF435, a novel human SCAN-containing zinc finger protein, inhibits AP-1-mediated transcriptional activation.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    HIV-1 interactions

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    Replication interactions

    Interaction Pubs
    Knockdown of zinc finger and SCAN domain containing 16 (ZSCAN16) by siRNA inhibits HIV-1 replication in HeLa P4/R5 cells PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ22191

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    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 
    enables sequence-specific double-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    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 and SCAN domain-containing protein 16
    Names
    zinc finger protein 392
    zinc finger protein 435

    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_001320555.2 → NP_001307484.1  zinc finger and SCAN domain-containing protein 16 isoform a

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode the same isoform (a).
      Source sequence(s)
      AK025844, CA306342, DA093436, DB158261
      Consensus CDS
      CCDS4644.1
      UniProtKB/Swiss-Prot
      Q9H4T2, Q9H6K2
      Conserved Domains (4) summary
      smart00431
      Location:37 → 148
      SCAN; leucine rich region
      COG5048
      Location:183 → 323
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:238 → 258
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:320 → 342
      zf-C2H2; Zinc finger, C2H2 type

    2. NM_001320556.2 → NP_001307485.1  zinc finger and SCAN domain-containing protein 16 isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a.
      Source sequence(s)
      AK025844, CA306342, CB158915, DB158261
      UniProtKB/Swiss-Prot
      Q9H4T2
      Conserved Domains (6) summary
      smart00431
      Location:37 → 140
      SCAN; leucine rich region
      COG5048
      Location:154 → 294
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:209 → 229
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:207 → 229
      zf-C2H2; Zinc finger, C2H2 type
      pfam02023
      Location:38 → 106
      SCAN; SCAN domain
      pfam13465
      Location:221 → 246
      zf-H2C2_2; Zinc-finger double domain

    3. NM_001320557.2 → NP_001307486.1  zinc finger and SCAN domain-containing protein 16 isoform c

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (c) has a shorter and distinct C-terminus compared to isoform a.
      Source sequence(s)
      AK025844, CA306342, CX865974, DB158261
      UniProtKB/Swiss-Prot
      Q9H4T2
      Conserved Domains (2) summary
      smart00431
      Location:37 → 148
      SCAN; leucine rich region
      pfam02023
      Location:38 → 125
      SCAN; SCAN domain

    4. NM_001320558.2 → NP_001307487.1  zinc finger and SCAN domain-containing protein 16 isoform d

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (d) has a shorter and distinct C-terminus compared to isoform a.
      Source sequence(s)
      AK294017, DA108362
      UniProtKB/TrEMBL
      B4DFB7
      Conserved Domains (2) summary
      smart00431
      Location:37 → 148
      SCAN; leucine rich region
      pfam02023
      Location:38 → 125
      SCAN; SCAN domain

    5. NM_025231.3 → NP_079507.1  zinc finger and SCAN domain-containing protein 16 isoform a

      See identical proteins and their annotated locations for NP_079507.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (a). Variants 1 and 2 both encode the same isoform (a).
      Source sequence(s)
      AK025844, CA306342
      Consensus CDS
      CCDS4644.1
      UniProtKB/Swiss-Prot
      Q9H4T2, Q9H6K2
      Related
      ENSP00000366527.3, ENST00000340487.5
      Conserved Domains (4) summary
      smart00431
      Location:37 → 148
      SCAN; leucine rich region
      COG5048
      Location:183 → 323
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:238 → 258
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:320 → 342
      zf-C2H2; Zinc finger, C2H2 type

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

      Range
      28124609..28130082
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047419378.1 → XP_047275334.1  zinc finger and SCAN domain-containing protein 16 isoform X2

    2. XM_017011324.2 → XP_016866813.1  zinc finger and SCAN domain-containing protein 16 isoform X1

      UniProtKB/Swiss-Prot
      Q9H4T2, Q9H6K2
      Conserved Domains (4) summary
      smart00431
      Location:37 → 148
      SCAN; leucine rich region
      COG5048
      Location:183 → 323
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:238 → 258
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:320 → 342
      zf-C2H2; Zinc finger, C2H2 type

    3. XM_047419379.1 → XP_047275335.1  zinc finger and SCAN domain-containing protein 16 isoform X2

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      27994629..28000107
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054356470.1 → XP_054212445.1  zinc finger and SCAN domain-containing protein 16 isoform X2

    2. XM_054356469.1 → XP_054212444.1  zinc finger and SCAN domain-containing protein 16 isoform X1

      UniProtKB/Swiss-Prot
      Q9H4T2, Q9H6K2

    3. XM_054356471.1 → XP_054212446.1  zinc finger and SCAN domain-containing protein 16 isoform X2

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9H4T2.2 GenPept UniProtKB/Swiss-Prot:Q9H4T2

    Gene LinkOut

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