Ebf4 early B cell factor 4 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Ebf4provided by MGI
Official Full Name: early B cell factor 4provided by MGI
Primary source: MGI:MGI:2385972
See related: Ensembl:ENSMUSG00000053552 AllianceGenome:MGI:2385972
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: Ebf3; O/E-4; Olf-1
Summary: Enables DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Involved in positive regulation of transcription by RNA polymerase II. Acts upstream of or within regulation of DNA-templated transcription. Predicted to be located in chromatin. Is expressed in several structures, including diaphragm; genitourinary system; nervous system; retina; and skeletal muscle. Orthologous to human EBF4 (EBF family member 4). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Broad expression in ovary adult (RPKM 14.4), limb E14.5 (RPKM 10.1) and 18 other tissues See more
Orthologs: human all
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Genomic context

Location:: 2 F1; 2 63.21 cM

Exon count:: 19

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	2	NC_000068.8 (130134832..130212402)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	2	NC_000068.7 (130295126..130370482)

Chromosome 2 - NC_000068.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: 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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The fourth member of the Olf-1/Ebf-like gene family, O/E-4, is expressed in the neuronal and basal cell layers of olfactory epithelium and may interact with other O/E family members to regulate gene expression in the olfactory sensory neurons.
Title: Cloning of a novel Olf-1/EBF-like gene, O/E-4, by degenerate oligo-based direct selection.

Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (2)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Ebf4 (e-PCR), detects polymorphism
- UniSTS:545929

AU026919 (e-PCR)
- UniSTS:113806

SHGC-153198 (e-PCR)
- UniSTS:177643

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	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IMP Inferred from Mutant Phenotype 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	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor binding	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 RNA polymerase II transcription regulatory region sequence-specific DNA binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables transcription factor binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in T cell apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of DNA-templated transcription	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 chromatin	ISO Inferred from Sequence Orthology more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: transcription factor COE4

Names: EBF-4; OE-4; Olf-1/EBF-like 4; early B-cell factor 3

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)

NM_001110513.1 → NP_001103983.1 transcription factor COE4 isoform 2

See identical proteins and their annotated locations for NP_001103983.1

Status: VALIDATED

Source sequence(s)

AF387633, BE944141

Consensus CDS

CCDS50709.1

UniProtKB/Swiss-Prot

A2BI82, A2BI83, Q8K4J1, Q8K4J2, Q8K4J3, Q8K4J4, Q8K4J5

UniProtKB/TrEMBL

A2BI84, B2RQX3

Related

ENSMUSP00000105915.2, ENSMUST00000110286.8

Conserved Domains (3) summary

cd01175
Location:256 → 340

IPT_COE; IPT domain of the COE family (Col/Olf-1/EBF) of non-basic, helix-loop-helix (HLH)-containing transcription factors. COE family proteins are all transcription factors and play an important role in variety of developmental processes. Mouse EBF is involved ...

pfam16422
Location:22 → 248

COE1_DBD; Transcription factor COE1 DNA-binding domain

pfam16423
Location:341 → 384

COE1_HLH; Transcription factor COE1 helix-loop-helix domain
NM_001415846.1 → NP_001402775.1 transcription factor COE4 isoform 1 precursor

Status: VALIDATED

Source sequence(s)

BX890605, BX936285

UniProtKB/TrEMBL

A2BI80

Related

ENSMUSP00000105917.3, ENSMUST00000110288.9

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

NC_000068.8 Reference GRCm39 C57BL/6J

Range

130134832..130212402

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_030250437.2 → XP_030106297.1 transcription factor COE4 isoform X1

Conserved Domains (3) summary

cd01175
Location:381 → 465

IPT_COE; IPT domain of the COE family (Col/Olf-1/EBF) of non-basic, helix-loop-helix (HLH)-containing transcription factors. COE family proteins are all transcription factors and play an important role in variety of developmental processes. Mouse EBF is involved ...

pfam16422
Location:119 → 345

COE1_DBD; Transcription factor COE1 DNA-binding domain

pfam16423
Location:466 → 509

COE1_HLH; Transcription factor COE1 helix-loop-helix domain
XM_030250430.2 → XP_030106290.1 transcription factor COE4 isoform X3

Conserved Domains (3) summary

cd01175
Location:381 → 465

IPT_COE; IPT domain of the COE family (Col/Olf-1/EBF) of non-basic, helix-loop-helix (HLH)-containing transcription factors. COE family proteins are all transcription factors and play an important role in variety of developmental processes. Mouse EBF is involved ...

pfam16422
Location:119 → 345

COE1_DBD; Transcription factor COE1 DNA-binding domain

pfam16423
Location:466 → 509

COE1_HLH; Transcription factor COE1 helix-loop-helix domain
XM_011239472.4 → XP_011237774.1 transcription factor COE4 isoform X5

See identical proteins and their annotated locations for XP_011237774.1

UniProtKB/TrEMBL

A2BI84

Conserved Domains (3) summary

cd01175
Location:256 → 340

IPT_COE; IPT domain of the COE family (Col/Olf-1/EBF) of non-basic, helix-loop-helix (HLH)-containing transcription factors. COE family proteins are all transcription factors and play an important role in variety of developmental processes. Mouse EBF is involved ...

pfam16422
Location:22 → 248

COE1_DBD; Transcription factor COE1 DNA-binding domain

pfam16423
Location:341 → 384

COE1_HLH; Transcription factor COE1 helix-loop-helix domain
XM_006499285.4 → XP_006499348.1 transcription factor COE4 isoform X4

Conserved Domains (3) summary

cd01175
Location:48 → 132

IPT_COE; IPT domain of the COE family (Col/Olf-1/EBF) of non-basic, helix-loop-helix (HLH)-containing transcription factors. COE family proteins are all transcription factors and play an important role in variety of developmental processes. Mouse EBF is involved ...

cl17007
Location:1 → 40

COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain

pfam16423
Location:133 → 176

COE1_HLH; Transcription factor COE1 helix-loop-helix domain

RNA

XR_004940010.1 RNA Sequence
XR_004940016.1 RNA Sequence
XR_003952508.2 RNA Sequence
XR_004940027.1 RNA Sequence
XR_004940028.1 RNA Sequence
XR_374450.4 RNA Sequence
XR_004940026.1 RNA Sequence
XR_004940020.1 RNA Sequence

Related

ENSMUST00000126740.8

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_152993.1: Suppressed sequence

Description

NM_152993.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.