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ZNF416 zinc finger protein 416 [ Homo sapiens (human) ]

Gene ID: 55659, updated on 10-Dec-2024

Summary

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Official Symbol
ZNF416provided by HGNC
Official Full Name
zinc finger protein 416provided by HGNC
Primary source
HGNC:HGNC:20645
See related
Ensembl:ENSG00000083817 AllianceGenome:HGNC:20645
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
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 microautophagy; regulation of proteasomal ubiquitin-dependent protein catabolic process; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within cardiac muscle hypertrophy; negative regulation of cell growth involved in cardiac muscle cell development; and negative regulation of protein phosphorylation. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Dec 2024]
Expression
Ubiquitous expression in testis (RPKM 2.5), thyroid (RPKM 1.9) and 25 other tissues See more
Orthologs
all
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Genomic context

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See ZNF416 in Genome Data Viewer
Location:
19q13.43
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (57571566..57578911, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (60668494..60675839, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (58082934..58090279, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene zinc finger protein 549 Neighboring gene zinc finger protein 550 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15144 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:58070497-58071361 Neighboring gene uncharacterized LOC124904781 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr19:58071339-58072538 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11076 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:58095022-58095553 Neighboring gene zinc finger protein interacting with K protein 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15148 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15149 Neighboring gene zinc finger protein 530

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Tissue-specific circular RNA induction during human fetal development
  • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
  • BioProject: PRJNA270632
  • Publication: PMID 26076956
  • Analysis date: Mon Apr 2 22:54:59 2018

Bibliography

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Related articles in PubMed

  1. VIRMA mediates preferential m(6)A mRNA methylation in 3'UTR and near stop codon and associates with alternative polyadenylation. Yue Y, et al. Cell Discov, 2018. PMID 29507755, Free PMC Article
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
  3. Architecture of the human interactome defines protein communities and disease networks. Huttlin EL, et al. Nature, 2017 May 25. PMID 28514442, Free PMC Article
  4. Dual proteome-scale networks reveal cell-specific remodeling of the human interactome. Huttlin EL, et al. Cell, 2021 May 27. PMID 33961781, Free PMC Article
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

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)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Clone Names

  • FLJ20557

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
  
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
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
zinc finger protein 416

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_001353405.2 → NP_001340334.1  zinc finger protein 416 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC003682
    Conserved Domains (4) summary
    COG5048
    Location:253 → 434
    COG5048; FOG: Zn-finger [General function prediction only]
    COG5189
    Location:418 → 501
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    sd00017
    Location:200 → 220
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam13465
    Location:212 → 237
    zf-H2C2_2; Zinc-finger double domain

  2. NM_017879.3 → NP_060349.1  zinc finger protein 416 isoform 1

    See identical proteins and their annotated locations for NP_060349.1

    Status: VALIDATED

    Source sequence(s)
    AC003682
    Consensus CDS
    CCDS12954.1
    UniProtKB/Swiss-Prot
    Q9BWM5, Q9NWW8
    Related
    ENSP00000196489.2, ENST00000196489.4
    Conserved Domains (4) summary
    COG5048
    Location:77 → 506
    COG5048; FOG: Zn-finger [General function prediction only]
    COG5189
    Location:490 → 573
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    sd00017
    Location:272 → 292
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:28 → 67
    KRAB; KRAB box

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_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    57571566..57578911 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024451594.2 → XP_024307362.1  zinc finger protein 416 isoform X1

    Conserved Domains (4) summary
    COG5048
    Location:57 → 486
    COG5048; FOG: Zn-finger [General function prediction only]
    COG5189
    Location:470 → 553
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    sd00017
    Location:252 → 272
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:8 → 47
    KRAB; KRAB box

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    60668494..60675839 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054321410.1 → XP_054177385.1  zinc finger protein 416 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9BWM5.1 GenPept UniProtKB/Swiss-Prot:Q9BWM5

Gene LinkOut

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