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ELF3 E74 like ETS transcription factor 3 [ Homo sapiens (human) ]

Gene ID: 1999, updated on 2-Nov-2024

Summary

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Official Symbol
ELF3provided by HGNC
Official Full Name
E74 like ETS transcription factor 3provided by HGNC
Primary source
HGNC:HGNC:3318
See related
Ensembl:ENSG00000163435 MIM:602191; AllianceGenome:HGNC:3318
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
ERT; ESX; EPR-1; ESE-1
Summary
Enables DNA-binding transcription activator activity, RNA polymerase II-specific and sequence-specific double-stranded DNA binding activity. Involved in inflammatory response; negative regulation of DNA-templated transcription; and positive regulation of transcription by RNA polymerase II. Located in Golgi apparatus; cytosol; and nucleoplasm. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in colon (RPKM 88.6), stomach (RPKM 68.2) and 13 other tissues See more
Orthologs
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Genomic context

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See ELF3 in Genome Data Viewer
Location:
1q32.1
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (202010587..202017183)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (201268232..201274828)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (201979715..201986311)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2326 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1696 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:201955078-201955252 Neighboring gene ribosomal protein L10 pseudogene 4 Neighboring gene VISTA enhancer hs2572 Neighboring gene arginyl aminopeptidase Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:201973460-201974102 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:201977313-201977954 Neighboring gene ELF3 antisense RNA 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:201979681-201980614 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:201980615-201981549 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:201982359-201983558 Neighboring gene microRNA 6740 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:201987061-201987829 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:202038709-202039458 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:202041245-202041744 Neighboring gene CRISPRi-validated cis-regulatory element chr1.10696 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:202053789-202054548 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:202054549-202055308 Neighboring gene FOXA motif-containing MPRA enhancer 200 Neighboring gene uncharacterized LOC105371684 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:202072166-202073140 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:202073141-202074115 Neighboring gene cysteine rich protein 1 pseudogene 3 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:202077042-202078015 Neighboring gene CRISPRi-validated cis-regulatory element chr1.10703 Neighboring gene uncharacterized LOC105371683 Neighboring gene G protein-coupled receptor 37 like 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues 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

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Related articles in PubMed

  1. The ETS transcription factor ESE-1 transforms MCF-12A human mammary epithelial cells via a novel cytoplasmic mechanism. Prescott JD, et al. Mol Cell Biol, 2004 Jun. PMID 15169914, Free PMC Article
  2. E74 like ETS transcription factor 3 (ELF3) is a negative regulator of epithelial- mesenchymal transition in bladder carcinoma. Gondkar K, et al. Cancer Biomark, 2019. PMID 31104013
  3. The Transcription Factor Elf3 Is Essential for a Successful Mesenchymal to Epithelial Transition. Sengez B, et al. Cells, 2019 Aug 9. PMID 31404945, Free PMC Article
  4. Identification of epithelial-specific ETS-1 (ESE-1) as a tumor suppressor and molecular target of green tea compound, EGCG. Ha T, et al. Mol Carcinog, 2019 Jun. PMID 30676667
  5. Significance of ELF3 mRNA expression for detection of lymph node metastases of colorectal cancer. Nakarai C, et al. Anticancer Res, 2012 Sep. PMID 22993316

See all (111) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Switch of ELF3 and ATF4 transcriptional axis programs the amino acid insufficiency-linked epithelial-to-mesenchymal transition.
    Title: Switch of ELF3 and ATF4 transcriptional axis programs the amino acid insufficiency-linked epithelial-to-mesenchymal transition.
  2. ELF3 plays an important role in defining TRAIL sensitivity in breast cancer by modulating the expression of decoy receptor 2 (DCR2).
    Title: ELF3 plays an important role in defining TRAIL sensitivity in breast cancer by modulating the expression of decoy receptor 2 (DCR2).
  3. HLA-C expression in extravillous trophoblasts is determined by an ELF3-NLRP2/NLRP7 regulatory axis.
    Title: HLA-C expression in extravillous trophoblasts is determined by an ELF3-NLRP2/NLRP7 regulatory axis.
  4. WTAP Mediated N6-methyladenosine RNA Modification of ELF3 Drives Cellular Senescence by Upregulating IRF8.
    Title: WTAP Mediated N6-methyladenosine RNA Modification of ELF3 Drives Cellular Senescence by Upregulating IRF8.
  5. Expression of CD44 is regulated by ELF3 in 5-FU treated colorectal cancer cells.
    Title: Expression of CD44 is regulated by ELF3 in 5-FU treated colorectal cancer cells.
  6. ELF3 promotes gemcitabine resistance through PKMYT1/CDK1 signaling pathway in gallbladder cancer.
    Title: ELF3 promotes gemcitabine resistance through PKMYT1/CDK1 signaling pathway in gallbladder cancer.
  7. An integrative epigenomic approach identifies ELF3 as an oncogenic regulator in ASCL1-positive neuroendocrine carcinoma.
    Title: An integrative epigenomic approach identifies ELF3 as an oncogenic regulator in ASCL1-positive neuroendocrine carcinoma.
  8. ESE1/AGR2 axis antagonizes TGF-beta-induced epithelial-mesenchymal transition in low-grade pancreatic cancer.
    Title: ESE1/AGR2 axis antagonizes TGF-β-induced epithelial-mesenchymal transition in low-grade pancreatic cancer.
  9. MYB and ELF3 differentially modulate labor-inducing gene expression in myometrial cells.
    Title: MYB and ELF3 differentially modulate labor-inducing gene expression in myometrial cells.
  10. LncRNA ELF3-AS1 inhibits gastric cancer by forming a negative feedback loop with SNAI2 and regulates ELF3 mRNA stability via interacting with ILF2/ILF3 complex.
    Title: LncRNA ELF3-AS1 inhibits gastric cancer by forming a negative feedback loop with SNAI2 and regulates ELF3 mRNA stability via interacting with ILF2/ILF3 complex.
Submit: New GeneRIF Correction See all GeneRIFs (76)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Replication interactions

Interaction Pubs
Knockdown of E74-like factor 3 (ets domain transcription factor, epithelial-specific; ELF3) by siRNA enhances the early stages of HIV-1 replication in HeLa-CD4 cells infected with viral pseudotypes HIV89.6R and HIV8.2N PubMed

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 gp120-treated vaginal epithelial cells show upregulation of E74-like factor 3 (ELF3) expression as compared to untreated control PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA-binding transcription activator activity, RNA polymerase II-specific IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA-binding transcription factor activity TAS
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
  
enables DNA-binding transcription factor activity, RNA polymerase II-specific ISA
Inferred from Sequence Alignment
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables sequence-specific double-stranded DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in blastocyst development IEA
Inferred from Electronic Annotation
more info
  
involved_in cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cell differentiation IEA
Inferred from Electronic Annotation
more info
  
involved_in extracellular matrix organization IEA
Inferred from Electronic Annotation
more info
  
involved_in inflammatory response IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in mammary gland involution ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in negative regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in Golgi apparatus IDA
Inferred from Direct Assay
more info
  
located_in chromatin ISA
Inferred from Sequence Alignment
more info
  
located_in cytosol IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus NAS
Non-traceable Author Statement
more info
 PubMed 

General protein information

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Preferred Names
ETS-related transcription factor Elf-3
Names
E74-like factor 3 (ETS domain transcription factor, serine box, epithelial-specific)
E74-like factor 3 (ets domain transcription factor)
E74-like factor 3 (ets domain transcription factor, epithelial-specific )
epithelial-restricted with serine box
epithelium-restricted Ets protein ESX
epithelium-specific Ets transcription factor 1
ets domain transcription factor, serine box (epithelial-specific)

NCBI Reference Sequences (RefSeq)

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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_001114309.2 → NP_001107781.1  ETS-related transcription factor Elf-3

    See identical proteins and their annotated locations for NP_001107781.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    BC003569, BM976796, BQ023145, BX093212, CV570925, CV570991, DA591406
    Consensus CDS
    CCDS1419.1
    UniProtKB/Swiss-Prot
    B2R5Q6, P78545, Q6IAP8, Q7RU03, Q7Z3X2, Q8NFG2, Q99718
    UniProtKB/TrEMBL
    A0A8E8R9T1
    Related
    ENSP00000356252.3, ENST00000367283.7
    Conserved Domains (2) summary
    cd08537
    Location:53 → 132
    SAM_PNT-ESE-1-like; Sterile alpha motif (SAM)/Pointed domain of ESE-1 like ETS transcriptional regulators
    smart00413
    Location:272 → 359
    ETS; erythroblast transformation specific domain

  2. NM_004433.5 → NP_004424.3  ETS-related transcription factor Elf-3

    See identical proteins and their annotated locations for NP_004424.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant represents the shorter transcript (1). Variants 1 and 2 encode the same protein.
    Source sequence(s)
    BC003569, BM976796, BQ023145, BX093212, CV570925, CV570991
    Consensus CDS
    CCDS1419.1
    UniProtKB/Swiss-Prot
    B2R5Q6, P78545, Q6IAP8, Q7RU03, Q7Z3X2, Q8NFG2, Q99718
    UniProtKB/TrEMBL
    A0A8E8R9T1
    Related
    ENSP00000356253.5, ENST00000367284.10
    Conserved Domains (2) summary
    cd08537
    Location:53 → 132
    SAM_PNT-ESE-1-like; Sterile alpha motif (SAM)/Pointed domain of ESE-1 like ETS transcriptional regulators
    smart00413
    Location:272 → 359
    ETS; erythroblast transformation specific domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    202010587..202017183
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005244942.4 → XP_005244999.1  ETS-related transcription factor Elf-3 isoform X1

    UniProtKB/TrEMBL
    Q5SR36
    Conserved Domains (1) summary
    cd08537
    Location:53 → 132
    SAM_PNT-ESE-1-like; Sterile alpha motif (SAM)/Pointed domain of ESE-1 like ETS transcriptional regulators

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    201268232..201274828
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054334877.1 → XP_054190852.1  ETS-related transcription factor Elf-3 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P78545.1 GenPept UniProtKB/Swiss-Prot:P78545

Gene LinkOut

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

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