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ZNF397 zinc finger protein 397 [ Homo sapiens (human) ]

Gene ID: 84307, updated on 7-Jun-2020

Summary

Official Symbol
ZNF397provided by HGNC
Official Full Name
zinc finger protein 397provided by HGNC
Primary source
HGNC:HGNC:18818
See related
Ensembl:ENSG00000186812 MIM:609601
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
ZNF47; ZSCAN15
Summary
This gene encodes a protein with a N-terminal SCAN domain, and the longer isoform contains nine C2H2-type zinc finger repeats in the C-terminal domain. The protein localizes to centromeres during interphase and early prophase, and different isoforms can repress or activate transcription in transfection studies. Multiple transcript variants encoding different isoforms have been found for this gene. Additional variants have been described, but their biological validity has not been determined. [provided by RefSeq, Oct 2009]
Expression
Ubiquitous expression in thyroid (RPKM 5.5), brain (RPKM 5.3) and 25 other tissues See more
Orthologs

Genomic context

See ZNF397 in Genome Data Viewer
Location:
18q12.2
Exon count:
6
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 18 NC_000018.10 (35240704..35259227)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 18 NC_000018.9 (32820994..32838397)

Chromosome 18 - NC_000018.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105372061 Neighboring gene Sharpr-MPRA regulatory region 7107 Neighboring gene microtubule associated protein RP/EB family member 2 Neighboring gene zinc finger and SCAN domain containing 30 Neighboring gene zinc finger protein 271, pseudogene Neighboring gene uncharacterized LOC107985139 Neighboring gene zinc finger protein 24

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

  • MGC13250

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding IEA
Inferred from Electronic Annotation
more info
 
DNA-binding transcription factor activity IEA
Inferred from Electronic Annotation
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
regulation of transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cytosol IDA
Inferred from Direct Assay
more info
 
microtubule cytoskeleton IDA
Inferred from Direct Assay
more info
 
nucleolus IDA
Inferred from Direct Assay
more info
 
plasma membrane IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
zinc finger protein 397
Names
zinc finger and SCAN domain-containing protein 15
zinc finger protein 47

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.

Genomic

  1. NG_015815.1 RefSeqGene

    Range
    5005..23198
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001135178.3NP_001128650.1  zinc finger protein 397 isoform 1

    See identical proteins and their annotated locations for NP_001128650.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1), also known as ZNF397-fu.
    Source sequence(s)
    AC011815, AF533250, BC006172, BI772202
    Consensus CDS
    CCDS45852.1
    UniProtKB/Swiss-Prot
    Q8NF99
    Related
    ENSP00000331577.6, ENST00000330501.12
    Conserved Domains (6) summary
    smart00431
    Location:46152
    SCAN; leucine rich region
    COG5048
    Location:278527
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:399419
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:285307
    zf-C2H2; Zinc finger, C2H2 type
    pfam02023
    Location:46134
    SCAN; SCAN domain
    pfam13465
    Location:299323
    zf-H2C2_2; Zinc-finger double domain
  2. NM_032347.3NP_115723.1  zinc finger protein 397 isoform 2

    See identical proteins and their annotated locations for NP_115723.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) has an alternate 3' CDS and 3' UTR, as compared to variant 1. The resulting isoform (2) has a shorter and distinct C-terminus that lacks the zinc finger domains, as compared to isoform 1.
    Source sequence(s)
    AA805259, AC011815, BC006172, BI772202
    Consensus CDS
    CCDS32814.1
    UniProtKB/Swiss-Prot
    Q8NF99
    Related
    ENSP00000261333.5, ENST00000261333.10
    Conserved Domains (1) summary
    smart00431
    Location:46152
    SCAN; leucine rich region

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_000018.10 Reference GRCh38.p13 Primary Assembly

    Range
    35240704..35259227
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024451275.1XP_024307043.1  zinc finger protein 397 isoform X3

    Conserved Domains (2) summary
    COG5048
    Location:5254
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:126146
    ZF_C2H2; C2H2 Zn finger [structural motif]
  2. XM_011526230.2XP_011524532.1  zinc finger protein 397 isoform X1

    See identical proteins and their annotated locations for XP_011524532.1

    Conserved Domains (6) summary
    smart00431
    Location:46139
    SCAN; leucine rich region
    COG5048
    Location:297546
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:418438
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:304326
    zf-C2H2; Zinc finger, C2H2 type
    pfam02023
    Location:46134
    SCAN; SCAN domain
    pfam13465
    Location:318342
    zf-H2C2_2; Zinc-finger double domain
  3. XM_024451276.1XP_024307044.1  zinc finger protein 397 isoform X3

    Conserved Domains (2) summary
    COG5048
    Location:5254
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:126146
    ZF_C2H2; C2H2 Zn finger [structural motif]
  4. XM_011526229.2XP_011524531.1  zinc finger protein 397 isoform X1

    See identical proteins and their annotated locations for XP_011524531.1

    Conserved Domains (6) summary
    smart00431
    Location:46139
    SCAN; leucine rich region
    COG5048
    Location:297546
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:418438
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:304326
    zf-C2H2; Zinc finger, C2H2 type
    pfam02023
    Location:46134
    SCAN; SCAN domain
    pfam13465
    Location:318342
    zf-H2C2_2; Zinc-finger double domain
  5. XM_006722558.2XP_006722621.1  zinc finger protein 397 isoform X1

    See identical proteins and their annotated locations for XP_006722621.1

    Conserved Domains (6) summary
    smart00431
    Location:46139
    SCAN; leucine rich region
    COG5048
    Location:297546
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:418438
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:304326
    zf-C2H2; Zinc finger, C2H2 type
    pfam02023
    Location:46134
    SCAN; SCAN domain
    pfam13465
    Location:318342
    zf-H2C2_2; Zinc-finger double domain
  6. XM_024451273.1XP_024307041.1  zinc finger protein 397 isoform X3

    Conserved Domains (2) summary
    COG5048
    Location:5254
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:126146
    ZF_C2H2; C2H2 Zn finger [structural motif]
  7. XM_017026042.1XP_016881531.1  zinc finger protein 397 isoform X2

    UniProtKB/Swiss-Prot
    Q8NF99
    Conserved Domains (6) summary
    smart00431
    Location:46152
    SCAN; leucine rich region
    COG5048
    Location:278527
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:399419
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:285307
    zf-C2H2; Zinc finger, C2H2 type
    pfam02023
    Location:46134
    SCAN; SCAN domain
    pfam13465
    Location:299323
    zf-H2C2_2; Zinc-finger double domain
  8. XM_011526231.2XP_011524533.1  zinc finger protein 397 isoform X2

    See identical proteins and their annotated locations for XP_011524533.1

    UniProtKB/Swiss-Prot
    Q8NF99
    Conserved Domains (6) summary
    smart00431
    Location:46152
    SCAN; leucine rich region
    COG5048
    Location:278527
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:399419
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:285307
    zf-C2H2; Zinc finger, C2H2 type
    pfam02023
    Location:46134
    SCAN; SCAN domain
    pfam13465
    Location:299323
    zf-H2C2_2; Zinc-finger double domain
  9. XM_024451274.1XP_024307042.1  zinc finger protein 397 isoform X3

    Conserved Domains (2) summary
    COG5048
    Location:5254
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:126146
    ZF_C2H2; C2H2 Zn finger [structural motif]
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