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

Gene ID: 80345, updated on 2-Nov-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, Nov 2024]
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_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (28124609..28130082)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (27994629..28000107)
RS_2024_09 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 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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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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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)

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_2024_08

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

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