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ZNF3 zinc finger protein 3 [ Homo sapiens (human) ]

Gene ID: 7551, updated on 8-Jul-2021

Summary

Official Symbol
ZNF3provided by HGNC
Official Full Name
zinc finger protein 3provided by HGNC
Primary source
HGNC:HGNC:13089
See related
Ensembl:ENSG00000166526 MIM:194510
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
A8-51; HF.12; KOX25; PP838; Zfp113
Expression
Ubiquitous expression in endometrium (RPKM 7.6), thyroid (RPKM 6.8) and 25 other tissues See more
Orthologs
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Genomic context

See ZNF3 in Genome Data Viewer
Location:
7q22.1
Exon count:
10
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 7 NC_000007.14 (100063837..100082577, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (99661460..99680200, complement)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105375423 Neighboring gene Sharpr-MPRA regulatory region 15167 Neighboring gene zinc finger with KRAB and SCAN domains 1 Neighboring gene zinc finger and SCAN domain containing 21 Neighboring gene Sharpr-MPRA regulatory region 1952 Neighboring gene COP9 signalosome subunit 6 Neighboring gene microRNA 25 Neighboring gene minichromosome maintenance complex component 7

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

  • FLJ20216

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA binding NAS
Non-traceable Author Statement
more info
PubMed 
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables DNA-binding transcription repressor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables zinc ion binding NAS
Non-traceable Author Statement
more info
PubMed 
Process Evidence Code Pubs
involved_in cell differentiation IEA
Inferred from Electronic Annotation
more info
 
involved_in leukocyte activation NAS
Non-traceable Author Statement
more info
PubMed 
involved_in negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
zinc finger protein 3
Names
C2-H2 type zinc finger protein
zinc finger protein HF.12
zinc finger protein HZF3.1
zinc finger protein KOX25

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_001278284.2NP_001265213.1  zinc finger protein 3 isoform 2

    See identical proteins and their annotated locations for NP_001265213.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) represents the longest transcript and encodes isoform 2. Variants 2, 3, 4, 5, 8, and 15-18 all encode the same isoform (2).
    Source sequence(s)
    AC073842, BC041695, CA439866
    Consensus CDS
    CCDS43619.1
    UniProtKB/Swiss-Prot
    P17036
    Conserved Domains (4) summary
    COG5048
    Location:175353
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:286306
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:5091
    KRAB; KRAB box
    pfam13465
    Location:354379
    zf-H2C2_2; Zinc-finger double domain
  2. NM_001278287.2NP_001265216.1  zinc finger protein 3 isoform 2

    See identical proteins and their annotated locations for NP_001265216.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 3. Variants 2, 3, 4, 5, 8, and 15-18 all encode the same isoform (2).
    Source sequence(s)
    AC073842, BC041695, BQ071498, CA439866
    Consensus CDS
    CCDS43619.1
    UniProtKB/Swiss-Prot
    P17036
    Conserved Domains (4) summary
    COG5048
    Location:175353
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:286306
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:5091
    KRAB; KRAB box
    pfam13465
    Location:354379
    zf-H2C2_2; Zinc-finger double domain
  3. NM_001278290.2NP_001265219.1  zinc finger protein 3 isoform 2

    See identical proteins and their annotated locations for NP_001265219.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR compared to variant 3. Variants 2, 3, 4, 5, 8, and 15-18 all encode the same isoform (2).
    Source sequence(s)
    BC041695, CA439866, HY096067
    Consensus CDS
    CCDS43619.1
    UniProtKB/Swiss-Prot
    P17036
    Related
    ENSP00000415358.1, ENST00000424697.5
    Conserved Domains (4) summary
    COG5048
    Location:175353
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:286306
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:5091
    KRAB; KRAB box
    pfam13465
    Location:354379
    zf-H2C2_2; Zinc-finger double domain
  4. NM_001278291.2NP_001265220.1  zinc finger protein 3 isoform 3

    See identical proteins and their annotated locations for NP_001265220.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) differs in the 5' UTR, lacks the exon containing the translation start site, and initiates translation at an alternate start codon compared to variant 3. The resulting isoform (3) is shorter at the N-terminus compared to isoform 2. Variants 6, 7, 13, 19, and 20 all encode the same isoform (3).
    Source sequence(s)
    BC041695, CA439866, DA443888
    UniProtKB/TrEMBL
    Q86U76
    Related
    ENSP00000416088.2, ENST00000412947.6
    Conserved Domains (4) summary
    COG5048
    Location:139317
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:250270
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:1455
    KRAB; KRAB box
    pfam13465
    Location:318343
    zf-H2C2_2; Zinc-finger double domain
  5. NM_001278292.2NP_001265221.1  zinc finger protein 3 isoform 3

    See identical proteins and their annotated locations for NP_001265221.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) lacks the exon containing the translation start site and initiates translation at an alternate start codon compared to variant 3. The resulting isoform (3) is shorter at the N-terminus compared to isoform 2. Variants 6, 7, 13, 19, and 20 all encode the same isoform (3).
    Source sequence(s)
    BC041695, CA439866, DA623743
    UniProtKB/TrEMBL
    Q86U76
    Conserved Domains (4) summary
    COG5048
    Location:139317
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:250270
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:1455
    KRAB; KRAB box
    pfam13465
    Location:318343
    zf-H2C2_2; Zinc-finger double domain
  6. NM_001318135.2NP_001305064.1  zinc finger protein 3 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (8) differs in the 5' UTR compared to variant 3. Variants 2, 3, 4, 5, 8, and 15-18 all encode the same isoform (2).
    Source sequence(s)
    BC011887, BC025265, CA439866, DC347416
    Consensus CDS
    CCDS43619.1
    UniProtKB/Swiss-Prot
    P17036
    Conserved Domains (4) summary
    COG5048
    Location:175353
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:286306
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:5091
    KRAB; KRAB box
    pfam13465
    Location:354379
    zf-H2C2_2; Zinc-finger double domain
  7. NM_001318136.2NP_001305065.1  zinc finger protein 3 isoform 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (9) lacks two exons in its 5' UTR, contains an alternate internal segment, and uses an alternate start codon, compared to variant 3. The encoded isoform (4) has a longer and distinct N-terminus, compared to isoform 2. Variants 9, 11, and 21 all encode the same isoform (4).
    Source sequence(s)
    AK091984, BC013603, CA439866, CB988353
    UniProtKB/Swiss-Prot
    P17036
    UniProtKB/TrEMBL
    B3KRP4
    Related
    ENST00000487620.1
    Conserved Domains (4) summary
    COG5048
    Location:182360
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:293313
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:5798
    KRAB; KRAB box
    pfam13465
    Location:361386
    zf-H2C2_2; Zinc-finger double domain
  8. NM_001318137.2NP_001305066.1  zinc finger protein 3 isoform 5

    Status: VALIDATED

    Description
    Transcript Variant: This variant (10) has multiple differences in the UTRs and coding region, one of which results in the use of a downstream in-frame start codon, compared to variant 3. The resulting isoform (5) has a shorter N-terminus and a distinct C-terminus compared to isoform 2.
    Source sequence(s)
    AC093619, AF193057, AK000223, BC011887, CB129643, DC347416
    UniProtKB/Swiss-Prot
    P17036
    Conserved Domains (2) summary
    smart00349
    Location:1555
    KRAB; krueppel associated box
    pfam01352
    Location:1554
    KRAB; KRAB box
  9. NM_001362775.2NP_001349704.1  zinc finger protein 3 isoform 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (11), as well as variants 9 and 21, encodes isoform 4.
    Source sequence(s)
    AK091984, BC013603, CA439866, CB988353, DA955742
    Conserved Domains (4) summary
    COG5048
    Location:182360
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:293313
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:5798
    KRAB; KRAB box
    pfam13465
    Location:361386
    zf-H2C2_2; Zinc-finger double domain
  10. NM_001362776.2NP_001349705.1  zinc finger protein 3 isoform 6

    Status: VALIDATED

    Source sequence(s)
    AC073842, BC041695, CA439866, HY096067
    Conserved Domains (4) summary
    COG5048
    Location:180358
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:291311
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:5596
    KRAB; KRAB box
    pfam13465
    Location:359384
    zf-H2C2_2; Zinc-finger double domain
  11. NM_001362777.2NP_001349706.1  zinc finger protein 3 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (13), as well as variants 6, 7, 19, and 20, encodes isoform 3.
    Source sequence(s)
    BC041695, BP194298, CA439866, DA623743, DA961971
    Conserved Domains (4) summary
    COG5048
    Location:139317
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:250270
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:1455
    KRAB; KRAB box
    pfam13465
    Location:318343
    zf-H2C2_2; Zinc-finger double domain
  12. NM_001371210.1NP_001358139.1  zinc finger protein 3 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (14), as well as variant 1, encodes isoform 1.
    Source sequence(s)
    AC073842, AC093619
    Conserved Domains (1) summary
    pfam01352
    Location:5091
    KRAB; KRAB box
  13. NM_001371211.1NP_001358140.1  zinc finger protein 3 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (15), as well as variants 2-5, 8, and 16-18, encodes isoform 2.
    Source sequence(s)
    AC073842, AC093619
    Conserved Domains (4) summary
    COG5048
    Location:175353
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:286306
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:5091
    KRAB; KRAB box
    pfam13465
    Location:354379
    zf-H2C2_2; Zinc-finger double domain
  14. NM_001371212.1NP_001358141.1  zinc finger protein 3 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (16), as well as variants 2-5, 8, 15, 17, and 18, encodes isoform 2.
    Source sequence(s)
    AC073842, AC093619
    Conserved Domains (4) summary
    COG5048
    Location:175353
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:286306
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:5091
    KRAB; KRAB box
    pfam13465
    Location:354379
    zf-H2C2_2; Zinc-finger double domain
  15. NM_001371213.1NP_001358142.1  zinc finger protein 3 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (17), as well as variants 2-5, 8, 15, 16, and 18, encodes isoform 2.
    Source sequence(s)
    AC073842, AC093619
    Conserved Domains (4) summary
    COG5048
    Location:175353
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:286306
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:5091
    KRAB; KRAB box
    pfam13465
    Location:354379
    zf-H2C2_2; Zinc-finger double domain
  16. NM_001371214.1NP_001358143.1  zinc finger protein 3 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (18), as well as variants 2-5, 8, and 15-17, encodes isoform 2.
    Source sequence(s)
    AC073842, AC093619
    Conserved Domains (4) summary
    COG5048
    Location:175353
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:286306
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:5091
    KRAB; KRAB box
    pfam13465
    Location:354379
    zf-H2C2_2; Zinc-finger double domain
  17. NM_001371215.1NP_001358144.1  zinc finger protein 3 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (19), as well as variants 6, 7, 13, and 20, encodes isoform 3.
    Source sequence(s)
    AC073842, AC093619
    Conserved Domains (4) summary
    COG5048
    Location:139317
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:250270
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:1455
    KRAB; KRAB box
    pfam13465
    Location:318343
    zf-H2C2_2; Zinc-finger double domain
  18. NM_001371216.1NP_001358145.1  zinc finger protein 3 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (20), as well as variants 6, 7, 13, and 19, encodes isoform 3.
    Source sequence(s)
    AC073842, AC093619
    Conserved Domains (4) summary
    COG5048
    Location:139317
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:250270
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:1455
    KRAB; KRAB box
    pfam13465
    Location:318343
    zf-H2C2_2; Zinc-finger double domain
  19. NM_001371217.1NP_001358146.1  zinc finger protein 3 isoform 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (21), as well as variants 9 and 11, encodes isoform 4.
    Source sequence(s)
    AC073842, AC093619
    Conserved Domains (4) summary
    COG5048
    Location:182360
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:293313
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:5798
    KRAB; KRAB box
    pfam13465
    Location:361386
    zf-H2C2_2; Zinc-finger double domain
  20. NM_001371218.1NP_001358147.1  zinc finger protein 3 isoform 7

    Status: VALIDATED

    Source sequence(s)
    AC073842, AC093619
    Conserved Domains (3) summary
    COG5048
    Location:96274
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:207227
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam13465
    Location:275300
    zf-H2C2_2; Zinc-finger double domain
  21. NM_017715.4NP_060185.2  zinc finger protein 3 isoform 1

    See identical proteins and their annotated locations for NP_060185.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) differs in the 5' UTR, 3' UTR, and 3' coding sequence compared to variant 3. The resulting isoform (1) has a shorter and distinct C-terminus compared to isoform 2. Variants 1 and 14 both encode the same isoform (1).
    Source sequence(s)
    AC093619, AF217988, AK000223
    Consensus CDS
    CCDS43618.1
    UniProtKB/Swiss-Prot
    P17036
    Related
    ENSP00000399951.2, ENST00000413658.6
    Conserved Domains (1) summary
    pfam01352
    Location:5091
    KRAB; KRAB box
  22. NM_032924.5NP_116313.3  zinc finger protein 3 isoform 2

    See identical proteins and their annotated locations for NP_116313.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 3. Variants 2, 3, 4, 5, 8, and 15-18 all encode the same isoform (2).
    Source sequence(s)
    BC013603, CA439866, DC384519
    Consensus CDS
    CCDS43619.1
    UniProtKB/Swiss-Prot
    P17036
    Related
    ENSP00000299667.4, ENST00000299667.9
    Conserved Domains (4) summary
    COG5048
    Location:175353
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:286306
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:5091
    KRAB; KRAB box
    pfam13465
    Location:354379
    zf-H2C2_2; Zinc-finger double domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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
    100063837..100082577 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024446921.1XP_024302689.1  zinc finger protein 3 isoform X1

    Conserved Domains (4) summary
    COG5048
    Location:180358
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:291311
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:5596
    KRAB; KRAB box
    pfam13465
    Location:359384
    zf-H2C2_2; Zinc-finger double domain
  2. XM_024446920.1XP_024302688.1  zinc finger protein 3 isoform X1

    Conserved Domains (4) summary
    COG5048
    Location:180358
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:291311
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:5596
    KRAB; KRAB box
    pfam13465
    Location:359384
    zf-H2C2_2; Zinc-finger double domain
  3. XM_024446925.1XP_024302693.1  zinc finger protein 3 isoform X3

    Conserved Domains (4) summary
    COG5048
    Location:144322
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:255275
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:1960
    KRAB; KRAB box
    pfam13465
    Location:323348
    zf-H2C2_2; Zinc-finger double domain
  4. XM_024446919.1XP_024302687.1  zinc finger protein 3 isoform X1

    Conserved Domains (4) summary
    COG5048
    Location:180358
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:291311
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:5596
    KRAB; KRAB box
    pfam13465
    Location:359384
    zf-H2C2_2; Zinc-finger double domain
  5. XM_024446926.1XP_024302694.1  zinc finger protein 3 isoform X3

    Conserved Domains (4) summary
    COG5048
    Location:144322
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:255275
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:1960
    KRAB; KRAB box
    pfam13465
    Location:323348
    zf-H2C2_2; Zinc-finger double domain
  6. XM_024446927.1XP_024302695.1  zinc finger protein 3 isoform X3

    Conserved Domains (4) summary
    COG5048
    Location:144322
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:255275
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:1960
    KRAB; KRAB box
    pfam13465
    Location:323348
    zf-H2C2_2; Zinc-finger double domain
  7. XM_024446924.1XP_024302692.1  zinc finger protein 3 isoform X2

    Conserved Domains (4) summary
    COG5048
    Location:182360
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:293313
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:5798
    KRAB; KRAB box
    pfam13465
    Location:361386
    zf-H2C2_2; Zinc-finger double domain
  8. XM_024446928.1XP_024302696.1  zinc finger protein 3 isoform X3

    Conserved Domains (4) summary
    COG5048
    Location:144322
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:255275
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam01352
    Location:1960
    KRAB; KRAB box
    pfam13465
    Location:323348
    zf-H2C2_2; Zinc-finger double domain
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