U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Zfhx3 zinc finger homeobox 3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 307829, updated on 2-Nov-2024

Summary

Go to the top of the page Help
Symbol
Zfhx3provided by RGD
Full Name
zinc finger homeobox 3provided by RGD
Primary source
RGD:1560268
See related
EnsemblRapid:ENSRNOG00000014452 AllianceGenome:RGD:1560268
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Atbf1; RGD1560268
Summary
Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and enzyme binding activity. Involved in regulation of neuron differentiation. Predicted to be located in cytoplasm and nuclear body. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in familial atrial fibrillation; hepatocellular carcinoma; lung non-small cell carcinoma (multiple); prostate cancer; and spinocerebellar ataxia type 4. Orthologous to human ZFHX3 (zinc finger homeobox 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Adrenal (RPKM 66.6), Lung (RPKM 34.3) and 9 other tissues See more
Orthologs
human mouse all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See Zfhx3 in Genome Data Viewer
Location:
19q12
Exon count:
21
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 19 NC_086037.1 (52789146..53795664)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 19 NC_051354.1 (36257196..36886104)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 19 NC_005118.4 (42753983..42925794, complement)

Chromosome 19 - NC_086037.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134483638 Neighboring gene uncharacterized LOC134483513 Neighboring gene uncharacterized LOC120098516 Neighboring gene uncharacterized LOC134483353 Neighboring gene uncharacterized LOC134483639 Neighboring gene uncharacterized LOC134483640 Neighboring gene uncharacterized LOC103694327 Neighboring gene transfer RNA threonine (anticodon AGU) 21 Neighboring gene uncharacterized LOC108353195 Neighboring gene zinc finger homeobox 3 like Neighboring gene uncharacterized LOC120098527 Neighboring gene uncharacterized LOC120098483

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

Go to the top of the pageHelp

GeneRIFs: Gene References Into Functions

General gene information

Go to the top of the page Help

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables DNA-binding transcription repressor activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables enzyme binding ISO
Inferred from Sequence Orthology
more info
  
enables transcription cis-regulatory region binding ISO
Inferred from Sequence Orthology
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in circadian regulation of gene expression ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of myoblast differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of cell adhesion ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of myoblast differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of locomotor rhythm ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of neuron differentiation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of neuron differentiation IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in response to transforming growth factor beta ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear body ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
part_of transcription regulator complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

Go to the top of the page Help
Preferred Names
zinc finger homeobox protein 3

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

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_001427481.2 → NP_001414410.1  zinc finger homeobox protein 3

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000019
    UniProtKB/TrEMBL
    F1M4Q6
    Related
    ENSRNOP00000098452.1, ENSRNOT00000120840.2

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086037.1 Reference GRCr8

    Range
    52789146..53795664
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063278047.1 → XP_063134117.1  zinc finger homeobox protein 3 isoform X1

    UniProtKB/TrEMBL
    F1M4Q6

  2. XM_039098313.2 → XP_038954241.1  zinc finger homeobox protein 3 isoform X1

    UniProtKB/TrEMBL
    F1M4Q6
    Conserved Domains (5) summary
    smart00389
    Location:2156 → 2212
    HOX; Homeodomain
    COG5576
    Location:2604 → 2750
    COG5576; Homeodomain-containing transcription factor [Transcription]
    sd00017
    Location:1556 → 1580
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00020
    Location:1412 → 1432
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00046
    Location:2256 → 2310
    Homeobox; Homeobox domain

  3. XM_039098314.2 → XP_038954242.1  zinc finger homeobox protein 3 isoform X1

    UniProtKB/TrEMBL
    F1M4Q6
    Conserved Domains (5) summary
    smart00389
    Location:2156 → 2212
    HOX; Homeodomain
    COG5576
    Location:2604 → 2750
    COG5576; Homeodomain-containing transcription factor [Transcription]
    sd00017
    Location:1556 → 1580
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00020
    Location:1412 → 1432
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00046
    Location:2256 → 2310
    Homeobox; Homeobox domain

  4. XM_063278048.1 → XP_063134118.1  zinc finger homeobox protein 3 isoform X1

    UniProtKB/TrEMBL
    F1M4Q6

  5. XM_039098312.2 → XP_038954240.1  zinc finger homeobox protein 3 isoform X1

    UniProtKB/TrEMBL
    F1M4Q6
    Conserved Domains (5) summary
    smart00389
    Location:2156 → 2212
    HOX; Homeodomain
    COG5576
    Location:2604 → 2750
    COG5576; Homeodomain-containing transcription factor [Transcription]
    sd00017
    Location:1556 → 1580
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00020
    Location:1412 → 1432
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00046
    Location:2256 → 2310
    Homeobox; Homeobox domain

  6. XM_039098319.2 → XP_038954247.1  zinc finger homeobox protein 3 isoform X2

    Conserved Domains (5) summary
    smart00389
    Location:1243 → 1299
    HOX; Homeodomain
    COG5576
    Location:1691 → 1837
    COG5576; Homeodomain-containing transcription factor [Transcription]
    sd00017
    Location:643 → 667
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00020
    Location:499 → 519
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00046
    Location:1343 → 1397
    Homeobox; Homeobox domain

  7. XM_039098318.2 → XP_038954246.1  zinc finger homeobox protein 3 isoform X2

    Conserved Domains (5) summary
    smart00389
    Location:1243 → 1299
    HOX; Homeodomain
    COG5576
    Location:1691 → 1837
    COG5576; Homeodomain-containing transcription factor [Transcription]
    sd00017
    Location:643 → 667
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00020
    Location:499 → 519
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00046
    Location:1343 → 1397
    Homeobox; Homeobox domain

  8. XM_039098311.2 → XP_038954239.1  zinc finger homeobox protein 3 isoform X1

    UniProtKB/TrEMBL
    F1M4Q6
    Conserved Domains (5) summary
    smart00389
    Location:2156 → 2212
    HOX; Homeodomain
    COG5576
    Location:2604 → 2750
    COG5576; Homeodomain-containing transcription factor [Transcription]
    sd00017
    Location:1556 → 1580
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00020
    Location:1412 → 1432
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00046
    Location:2256 → 2310
    Homeobox; Homeobox domain

  9. XM_039098317.2 → XP_038954245.1  zinc finger homeobox protein 3 isoform X2

    Conserved Domains (5) summary
    smart00389
    Location:1243 → 1299
    HOX; Homeodomain
    COG5576
    Location:1691 → 1837
    COG5576; Homeodomain-containing transcription factor [Transcription]
    sd00017
    Location:643 → 667
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00020
    Location:499 → 519
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00046
    Location:1343 → 1397
    Homeobox; Homeobox domain

  10. XM_039098316.2 → XP_038954244.1  zinc finger homeobox protein 3 isoform X1

    UniProtKB/TrEMBL
    F1M4Q6
    Conserved Domains (5) summary
    smart00389
    Location:2156 → 2212
    HOX; Homeodomain
    COG5576
    Location:2604 → 2750
    COG5576; Homeodomain-containing transcription factor [Transcription]
    sd00017
    Location:1556 → 1580
    ZF_C2H2; C2H2 Zn finger [structural motif]
    sd00020
    Location:1412 → 1432
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00046
    Location:2256 → 2310
    Homeobox; Homeobox domain
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.