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EGR3 early growth response 3 [ Homo sapiens (human) ]

Gene ID: 1960, updated on 10-Dec-2019

Summary

Official Symbol
EGR3provided by HGNC
Official Full Name
early growth response 3provided by HGNC
Primary source
HGNC:HGNC:3240
See related
Ensembl:ENSG00000179388 MIM:602419
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
EGR-3; PILOT
Summary
This gene encodes a transcriptional regulator that belongs to the EGR family of C2H2-type zinc-finger proteins. It is an immediate-early growth response gene which is induced by mitogenic stimulation. The protein encoded by this gene participates in the transcriptional regulation of genes in controling biological rhythm. It may also play a role in a wide variety of processes including muscle development, lymphocyte development, endothelial cell growth and migration, and neuronal development. Alternative splicing results in multiple transcript variants encoding distinct isoforms.[provided by RefSeq, Dec 2010]
Expression
Broad expression in gall bladder (RPKM 18.5), brain (RPKM 16.1) and 21 other tissues See more
Orthologs

Genomic context

See EGR3 in Genome Data Viewer
Location:
8p21.3
Exon count:
5
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 8 NC_000008.11 (22687659..22693480, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (22545172..22550815, complement)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene bridging integrator 3 Neighboring gene uncharacterized LOC105369180 Neighboring gene CRISPRi-validated cis-regulatory element chr8.740 Neighboring gene uncharacterized LOC107986924 Neighboring gene uncharacterized LOC105379322 Neighboring gene uncharacterized LOC105379321

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

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Tat tat The gene expression of early growth response 3 is significantly upregulated in both clade B and clade C Tat treated SK-N-MC neuroblastoma cells PubMed
tat HIV-1 Tat (through amino acids 30-40) binds to Egr-3 and synergizes with this protein to super induce the FasL promoter PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Calcineurin-regulated NFAT-dependent transcription in lymphocytes, organism-specific biosystem (from Pathway Interaction Database)
    Calcineurin-regulated NFAT-dependent transcription in lymphocytes, organism-specific biosystem
    Calcineurin-regulated NFAT-dependent transcription in lymphocytes
  • Circadian rythm related genes, organism-specific biosystem (from WikiPathways)
    Circadian rythm related genes, organism-specific biosystemThis is currently not a pathway but a list of circadian rhythm related genes and proteins. The source for this information is the gene ontology. The genes and proteins were filtered for "circadian rh...
  • Hepatitis B, organism-specific biosystem (from KEGG)
    Hepatitis B, organism-specific biosystemHepatitis B virus (HBV) is an enveloped virus and contains a partially double-stranded relaxed circular DNA (RC-DNA) genome. After entry into hepatocytes, HBV RC-DNA is transported to the nucleus and...
  • Viral carcinogenesis, organism-specific biosystem (from KEGG)
    Viral carcinogenesis, organism-specific biosystemThere is a strong association between viruses and the development of human malignancies. We now know that at least six human viruses, Epstein-Barr virus (EBV), hepatitis B virus (HBV), hepatitis C vi...
  • Viral carcinogenesis, conserved biosystem (from KEGG)
    Viral carcinogenesis, conserved biosystemThere is a strong association between viruses and the development of human malignancies. We now know that at least six human viruses, Epstein-Barr virus (EBV), hepatitis B virus (HBV), hepatitis C vi...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC138484

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA-binding transcription factor activity TAS
Traceable Author Statement
more info
PubMed 
DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
DNA-binding transcription factor activity, RNA polymerase II-specific ISA
Inferred from Sequence Alignment
more info
 
DNA-binding transcription factor activity, RNA polymerase II-specific NAS
Non-traceable Author Statement
more info
PubMed 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
nuclear chromatin ISA
Inferred from Sequence Alignment
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
synapse IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
early growth response protein 3
Names
zinc finger protein pilot

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_001199880.2NP_001186809.1  early growth response protein 3 isoform 2

    See identical proteins and their annotated locations for NP_001186809.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) initiates from a distinct promoter and has a different 5' end, compared to variant (1). It encodes an isoform (2) with a shorter and distinct N-terminus, compared to isoform 1.
    Source sequence(s)
    AC105046, AK294968, AK295134, N66802, S40832, X63741
    Consensus CDS
    CCDS56528.1
    UniProtKB/Swiss-Prot
    Q06889
    UniProtKB/TrEMBL
    B4DH80
    Related
    ENSP00000430310.1, ENST00000522910.1
    Conserved Domains (3) summary
    COG5048
    Location:265338
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:239261
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam11928
    Location:49109
    DUF3446; Domain of unknown function (DUF3446)
  2. NM_001199881.2NP_001186810.1  early growth response protein 3 isoform 3

    See identical proteins and their annotated locations for NP_001186810.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) initiates from a distinct promoter and has a different 5' end, compared to variant (1). It encodes an isoform (3) with a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AC105046, AK294968, DC333411, N66802, S40832, X63741
    UniProtKB/Swiss-Prot
    Q06889
    UniProtKB/TrEMBL
    B4DH80
    Conserved Domains (5) summary
    COG5048
    Location:249305
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:223245
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:221245
    zf-C2H2; Zinc finger, C2H2 type
    pfam11928
    Location:3393
    DUF3446; Domain of unknown function (DUF3446)
    pfam13465
    Location:265290
    zf-H2C2_2; Zinc-finger double domain
  3. NM_004430.3NP_004421.2  early growth response protein 3 isoform 1

    See identical proteins and their annotated locations for NP_004421.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AC105046, N66802, S40832, X63741
    Consensus CDS
    CCDS6033.1
    UniProtKB/Swiss-Prot
    Q06889
    Related
    ENSP00000318057.2, ENST00000317216.3
    Conserved Domains (5) summary
    COG5048
    Location:303359
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:277299
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:275299
    zf-C2H2; Zinc finger, C2H2 type
    pfam11928
    Location:87147
    DUF3446; Domain of unknown function (DUF3446)
    pfam13465
    Location:319344
    zf-H2C2_2; Zinc-finger double 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_000008.11 Reference GRCh38.p13 Primary Assembly

    Range
    22687659..22693480 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005273426.3XP_005273483.1  early growth response protein 3 isoform X3

    See identical proteins and their annotated locations for XP_005273483.1

    UniProtKB/Swiss-Prot
    Q06889
    Conserved Domains (3) summary
    COG5048
    Location:265338
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:239261
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam11928
    Location:49109
    DUF3446; Domain of unknown function (DUF3446)
  2. XM_011544429.2XP_011542731.1  early growth response protein 3 isoform X2

    See identical proteins and their annotated locations for XP_011542731.1

    Conserved Domains (5) summary
    COG5048
    Location:322395
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:296318
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:294318
    zf-C2H2; Zinc finger, C2H2 type
    pfam11928
    Location:106166
    DUF3446; Domain of unknown function (DUF3446)
    pfam13465
    Location:338363
    zf-H2C2_2; Zinc-finger double domain
  3. XM_005273425.3XP_005273482.1  early growth response protein 3 isoform X1

    See identical proteins and their annotated locations for XP_005273482.1

    Conserved Domains (5) summary
    COG5048
    Location:358431
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:332354
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:330354
    zf-C2H2; Zinc finger, C2H2 type
    pfam11928
    Location:142202
    DUF3446; Domain of unknown function (DUF3446)
    pfam13465
    Location:374399
    zf-H2C2_2; Zinc-finger double domain
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