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Elk3 ELK3, member of ETS oncogene family [ Mus musculus (house mouse) ]

Gene ID: 13713, updated on 18-Sep-2024

Summary

Official Symbol
Elk3provided by MGI
Official Full Name
ELK3, member of ETS oncogene familyprovided by MGI
Primary source
MGI:MGI:101762
See related
Ensembl:ENSMUSG00000008398 AllianceGenome:MGI:101762
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Erp; Net; Etrp; Sap-2; D430049E23Rik
Summary
Enables DNA-binding transcription factor activity and sequence-specific DNA binding activity. Acts upstream of or within angiogenesis; regulation of transcription, DNA-templated; and wound healing. Located in cytoplasm and nucleus. Is expressed in several structures, including alimentary system; brain; embryo mesenchyme; genitourinary system; and sensory organ. Used to study congenital chylothorax. Orthologous to human ELK3 (ETS transcription factor ELK3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in lung adult (RPKM 24.3), limb E14.5 (RPKM 16.7) and 27 other tissues See more
Orthologs
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Genomic context

See Elk3 in Genome Data Viewer
Location:
10 C2; 10 48.04 cM
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (93083277..93147021, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (93247415..93311159, complement)

Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 40741 Neighboring gene STARR-positive B cell enhancer mm9_chr10:92631736-92632037 Neighboring gene microRNA 1931 Neighboring gene cyclin dependent kinase 17 Neighboring gene STARR-seq mESC enhancer starr_27570 Neighboring gene STARR-seq mESC enhancer starr_27572 Neighboring gene STARR-seq mESC enhancer starr_27573 Neighboring gene predicted gene, 32604 Neighboring gene STARR-positive B cell enhancer ABC_E5168 Neighboring gene CapStarr-seq enhancer MGSCv37_chr10:92757691-92757800 Neighboring gene STARR-seq mESC enhancer starr_27576 Neighboring gene predicted gene, 32551 Neighboring gene STARR-positive B cell enhancer ABC_E8357 Neighboring gene STARR-seq mESC enhancer starr_27578 Neighboring gene predicted gene, 32688 Neighboring gene STARR-positive B cell enhancer ABC_E8358 Neighboring gene STARR-positive B cell enhancer ABC_E5169 Neighboring gene predicted gene, 17745

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 
  • Targeted (3)  1 citation

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables DNA-binding transcription activator activity, RNA polymerase II-specific IEA
Inferred from Electronic Annotation
more info
 
enables DNA-binding transcription activator activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
 
enables DNA-binding transcription factor activity IDA
Inferred from Direct Assay
more info
PubMed 
enables DNA-binding transcription factor activity IEA
Inferred from Electronic Annotation
more info
 
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 IEA
Inferred from Electronic Annotation
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 IEA
Inferred from Electronic Annotation
more info
 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables purine-rich negative regulatory element binding IEA
Inferred from Electronic Annotation
more info
 
enables purine-rich negative regulatory element binding ISO
Inferred from Sequence Orthology
more info
 
enables sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables sequence-specific double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in mitochondrion IEA
Inferred from Electronic Annotation
more info
 
located_in mitochondrion ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm IEA
Inferred from Electronic Annotation
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 IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 
is_active_in nucleus ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
ETS domain-containing protein Elk-3
Names
ETS-domain protein ELK-3
ETS-related protein ERP
ETS-related protein NET

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_001282967.1NP_001269896.1  ETS domain-containing protein Elk-3 isoform Elk3d

    See identical proteins and their annotated locations for NP_001269896.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks exon 3, but maintains the reading frame compared to variant 1. The resulting isoform (Elk3d) lacks an internal protein segment compared to isoform Elk3. Unlike isoform Elk3, this isoform is predominantly localized in the cytosol and has been shown to activate transcription (PMID:20304071).
    Source sequence(s)
    AC140379, AC161054
    Consensus CDS
    CCDS70097.1
    UniProtKB/TrEMBL
    G3UVW8
    Related
    ENSMUSP00000121754.2, ENSMUST00000151153.2
    Conserved Domains (1) summary
    smart00413
    Location:569
    ETS; erythroblast transformation specific domain
  2. NM_001322265.1NP_001309194.1  ETS domain-containing protein Elk-3 isoform Elk3c

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) is alternatively spliced at exon 3, which causes a frameshift compared to variant 1. The resulting isoform (Elk3c, also known as Net-c) is shorter, with a distinct C-terminus compared to isoform Elk3.
    Source sequence(s)
    AC140379, AC161054, AK052546
    UniProtKB/TrEMBL
    C7C6B3
    Conserved Domains (1) summary
    smart00413
    Location:589
    ETS; erythroblast transformation specific domain
  3. NM_001322268.1NP_001309197.1  ETS domain-containing protein Elk-3 isoform Elk3b

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) is alternatively spliced and lacks the mid-region of exon 3, which causes a frameshift compared to variant 1. The resulting isoform (Elk3b, also known as Net-b) is shorter, with a distinct C-terminus compared to isoform Elk3. Note, variant 2 is borderline nonsense-mediated mRNA decay (NMD) candidate; however, this variant-specific protein expression has been observed in vivo (PMID:9315625).
    Source sequence(s)
    AC140379, AC161054, AK052546
    Consensus CDS
    CCDS83749.1
    UniProtKB/TrEMBL
    C7C6B2, G3UVX2
    Related
    ENSMUSP00000122324.2, ENSMUST00000129827.8
    Conserved Domains (1) summary
    smart00413
    Location:589
    ETS; erythroblast transformation specific domain
  4. NM_013508.2NP_038536.2  ETS domain-containing protein Elk-3 isoform Elk3

    See identical proteins and their annotated locations for NP_038536.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (Elk3, also known as Net). This isoform is predominantly localized in the nucleus and has been shown to inhibit transcription (PMID:20304071).
    Source sequence(s)
    AC140379, AC161054, AK052546
    Consensus CDS
    CCDS24124.1
    UniProtKB/Swiss-Prot
    P41971, P97747, Q62346, Q8BWH1
    UniProtKB/TrEMBL
    Q3UZH4
    Related
    ENSMUSP00000008542.6, ENSMUST00000008542.12
    Conserved Domains (1) summary
    smart00413
    Location:589
    ETS; erythroblast transformation specific domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000076.7 Reference GRCm39 C57BL/6J

    Range
    93083277..93147021 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030244871.2XP_030100731.1  ETS domain-containing protein Elk-3 isoform X1

    UniProtKB/Swiss-Prot
    P41971, P97747, Q62346, Q8BWH1
    UniProtKB/TrEMBL
    Q3UZH4
    Conserved Domains (1) summary
    smart00413
    Location:589
    ETS; erythroblast transformation specific domain

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_205536.1: Suppressed sequence

    Description
    NM_205536.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.