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ZNF398 zinc finger protein 398 [ Homo sapiens (human) ]

Gene ID: 57541, updated on 7-Jun-2020

Summary

Official Symbol
ZNF398provided by HGNC
Official Full Name
zinc finger protein 398provided by HGNC
Primary source
HGNC:HGNC:18373
See related
Ensembl:ENSG00000197024 MIM:618593
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
P51; P71; ZER6
Summary
This gene encodes a member of the Kruppel family of C2H2-type zinc-finger transcription factor proteins. The encoded protein acts as a transcriptional activator. Two transcript variants encoding distinct isoforms have been identified for this gene. Other transcript variants have been described, but their full length sequence has not been determined. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in testis (RPKM 4.5), esophagus (RPKM 2.9) and 25 other tissues See more
Orthologs

Genomic context

See ZNF398 in Genome Data Viewer
Location:
7q36.1
Exon count:
12
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 7 NC_000007.14 (149126408..149183042)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (148823508..148880134)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene zinc finger protein 786 Neighboring gene zinc finger protein 425 Neighboring gene RNA, 7SL, cytoplasmic 521, pseudogene Neighboring gene uncharacterized LOC107986856 Neighboring gene centrosomal protein 83kDa pseudogene Neighboring gene zinc finger protein 282 Neighboring gene Sharpr-MPRA regulatory region 80 Neighboring gene zinc finger protein 212

Genomic regions, transcripts, and products

Expression

  • 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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA1339

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding IEA
Inferred from Electronic Annotation
more info
 
DNA-binding transcription factor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
positive regulation of transcription, DNA-templated NAS
Non-traceable Author Statement
more info
PubMed 
regulation of transcription, DNA-templated NAS
Non-traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus NAS
Non-traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
zinc finger protein 398
Names
zinc finger DNA binding protein ZER6
zinc finger DNA binding protein p52/p71
zinc finger-estrogen receptor interaction, clone 6

NCBI Reference Sequences (RefSeq)

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_020781.4NP_065832.1  zinc finger protein 398 isoform b

    See identical proteins and their annotated locations for NP_065832.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2), also known as p52-ZER6, contains an additional segment in the coding region compared to variant 1. The resulting isoform (b) has a shorter N-terminal, compared to isoform a. Transcription of transcript variant 2 is repressed by estrogen receptor alpha.
    Source sequence(s)
    AC004890, AC073422, AY049743
    Consensus CDS
    CCDS47739.1
    UniProtKB/Swiss-Prot
    Q8TD17
    UniProtKB/TrEMBL
    A0A090N8F2
    Related
    ENSP00000389972.2, ENST00000426851.6
    Conserved Domains (4) summary
    COG5048
    Location:173417
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:314334
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:368390
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:382407
    zf-H2C2_2; Zinc-finger double domain
  2. NM_170686.3NP_733787.1  zinc finger protein 398 isoform a

    See identical proteins and their annotated locations for NP_733787.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1), also known as p71-ZER6, represents the shorter transcript, and encodes the longer isoform a.
    Source sequence(s)
    AC004890, AK026380, AY049744
    Consensus CDS
    CCDS5894.1
    UniProtKB/Swiss-Prot
    Q8TD17
    UniProtKB/TrEMBL
    A0A090N7S8
    Related
    ENSP00000420418.1, ENST00000475153.6
    Conserved Domains (4) summary
    smart00349
    Location:143201
    KRAB; krueppel associated box
    COG5048
    Location:344588
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:485505
    ZF_C2H2; C2H2 Zn finger [structural motif]
    cl25732
    Location:48121
    SMC_N; RecF/RecN/SMC N terminal domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p13 Primary Assembly

    Range
    149126408..149183042
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011516441.2XP_011514743.1  zinc finger protein 398 isoform X3

    See identical proteins and their annotated locations for XP_011514743.1

    UniProtKB/Swiss-Prot
    Q8TD17
    UniProtKB/TrEMBL
    A0A090N8F2
    Related
    ENSP00000418564.1, ENST00000483892.5
    Conserved Domains (4) summary
    COG5048
    Location:173417
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:314334
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:368390
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:382407
    zf-H2C2_2; Zinc-finger double domain
  2. XM_011516440.2XP_011514742.1  zinc finger protein 398 isoform X2

    Conserved Domains (7) summary
    cd07765
    Location:136175
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    smart00349
    Location:136194
    KRAB; krueppel associated box
    COG5048
    Location:337581
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:478498
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:532554
    zf-C2H2; Zinc finger, C2H2 type
    pfam12417
    Location:50105
    DUF3669; Zinc finger protein
    pfam13465
    Location:546571
    zf-H2C2_2; Zinc-finger double domain
  3. XM_011516439.2XP_011514741.1  zinc finger protein 398 isoform X1

    See identical proteins and their annotated locations for XP_011514741.1

    UniProtKB/TrEMBL
    B4DXA9
    Conserved Domains (7) summary
    cd07765
    Location:148187
    KRAB_A-box; KRAB (Kruppel-associated box) domain -A box
    smart00349
    Location:148206
    KRAB; krueppel associated box
    COG5048
    Location:349593
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:490510
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:544566
    zf-C2H2; Zinc finger, C2H2 type
    pfam12417
    Location:62117
    DUF3669; Zinc finger protein
    pfam13465
    Location:558583
    zf-H2C2_2; Zinc-finger double domain
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