Ebf1 early B cell factor 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Ebf1provided by MGI
Official Full Name: early B cell factor 1provided by MGI
Primary source: MGI:MGI:95275
See related: Ensembl:ENSMUSG00000057098 AllianceGenome:MGI:95275
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: Ebf; OE-1; Olf1; O/E-1; Olf-1
Summary: Enables DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in positive regulation of transcription by RNA polymerase II. Acts upstream of or within positive regulation of DNA-templated transcription. Located in nucleus. Is expressed in several structures, including central nervous system; embryo mesenchyme; hemolymphoid system; integumental system; and sensory organ. Used to study lipodystrophy. Orthologous to human EBF1 (EBF transcription factor 1). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Broad expression in subcutaneous fat pad adult (RPKM 17.6), mammary gland adult (RPKM 17.0) and 18 other tissues See more
Orthologs: human all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 11 B1.1; 11 26.45 cM

Exon count:: 19

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	11	NC_000077.7 (44502738..44898923)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	11	NC_000077.6 (44618100..45008096)

Chromosome 11 - NC_000077.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Transcriptome analysis reveals EBF1 ablation-induced injuries in cardiac system.
Title: Transcriptome analysis reveals EBF1 ablation-induced injuries in cardiac system.
Deletion of the Ebf1, a mouse deafness gene, causes a dramatic increase in hair cells and support cells of the organ of Corti.
Title: Deletion of the Ebf1, a mouse deafness gene, causes a dramatic increase in hair cells and support cells of the organ of Corti.
EBF1 Limits the Numbers of Cochlear Hair and Supporting Cells and Forms the Scala Tympani and Spiral Limbus during Inner Ear Development.
Title: EBF1 Limits the Numbers of Cochlear Hair and Supporting Cells and Forms the Scala Tympani and Spiral Limbus during Inner Ear Development.
Transcription factor EBF1 mitigates neuropathic pain by rescuing Kv1.2 expression in primary sensory neurons.
Title: Transcription factor EBF1 mitigates neuropathic pain by rescuing Kv1.2 expression in primary sensory neurons.
The transcription factor EBF1 non-cell-autonomously regulates cardiac growth and differentiation.
Title: The transcription factor EBF1 non-cell-autonomously regulates cardiac growth and differentiation.
MicroRNA-598 inhibition ameliorates LPS-induced acute lung injury in mice through upregulating Ebf1 expression.
Title: MicroRNA-598 inhibition ameliorates LPS-induced acute lung injury in mice through upregulating Ebf1 expression.
EBF1 primes B-lymphoid enhancers and limits the myeloid bias in murine multipotent progenitors.
Title: EBF1 primes B-lymphoid enhancers and limits the myeloid bias in murine multipotent progenitors.
Age-Progressive and Gender-Dependent Bone Phenotype in Mice Lacking Both Ebf1 and Ebf2 in Prrx1-Expressing Mesenchymal Cells.
Title: Age-Progressive and Gender-Dependent Bone Phenotype in Mice Lacking Both Ebf1 and Ebf2 in Prrx1-Expressing Mesenchymal Cells.
EBF1 and PAX5 control pro-B cell expansion via opposing regulation of the Myc gene.
Title: EBF1 and PAX5 control pro-B cell expansion via opposing regulation of the Myc gene.
B Lymphocyte Specification Is Preceded by Extensive Epigenetic Priming in Multipotent Progenitors.
Title: B Lymphocyte Specification Is Preceded by Extensive Epigenetic Priming in Multipotent Progenitors.

Submit: New GeneRIF Correction See all GeneRIFs (64)

Variation

Go to the top of the page Help

Alleles

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

Chemically induced (ENU) (6)
Endonuclease-mediated (3)
Spontaneous (1)
Targeted (6) 1 citation

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Markers

D11Mit270 (e-PCR), detects polymorphism
- UniSTS:126474

Ebf1 (e-PCR), detects polymorphism
- UniSTS:546574

AW990631 (e-PCR)
- UniSTS:185875

AW742795 (e-PCR)
- UniSTS:208663

BF407519 (e-PCR)
- UniSTS:248603

01.MMHAP95FRA7.seq (e-PCR)
- UniSTS:122681

Ebf1 (e-PCR), detects polymorphism
- UniSTS:465475

D11Dcr8 (e-PCR), detects polymorphism
- UniSTS:507481

Ebf1 (e-PCR), detects polymorphism
- UniSTS:463204

D11Mit130 (e-PCR), detects polymorphism
- UniSTS:126321

PMC134715P2 (e-PCR)
- UniSTS:270744

D11Mit175 (e-PCR), detects polymorphism
- UniSTS:126370

D3S3187 (e-PCR)
- UniSTS:153512

Ebf1 (e-PCR), detects polymorphism
- UniSTS:256430

RH133481 (e-PCR)
- UniSTS:216764

D11Mit20 (e-PCR), detects polymorphism
- UniSTS:126399

D11Mit20.1 (e-PCR), detects polymorphism
- UniSTS:126400

D11Mit206 (e-PCR), detects polymorphism
- UniSTS:126408

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables C2H2 zinc finger domain binding	ISO Inferred from Sequence Orthology more info
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 factor activity	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor 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	IDA Inferred from Direct Assay more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within positive 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
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 nucleoplasm	TAS Traceable Author Statement more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

Go to the top of the page Help

Preferred Names: transcription factor COE1

Names: early B-cell factor

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)

NM_001290709.1 → NP_001277638.1 transcription factor COE1 isoform 1

See identical proteins and their annotated locations for NP_001277638.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) encodes the longest isoform (1).

Source sequence(s)

AK141175, AL672013

Consensus CDS

CCDS70165.1

UniProtKB/TrEMBL

Q5SWK4, Q8BSM3

Related

ENSMUSP00000099857.3, ENSMUST00000101326.10

Conserved Domains (3) summary

cd01175
Location:263 → 347

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:21 → 247

COE1_DBD; Transcription factor COE1 DNA-binding domain

pfam16423
Location:348 → 391

COE1_HLH; Transcription factor COE1 helix-loop-helix domain
NM_001290710.1 → NP_001277639.1 transcription factor COE1 isoform 3

See identical proteins and their annotated locations for NP_001277639.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) has multiple differences in the coding region but maintains reading frame, compared to variant 1. The encoded isoform (3) is shorter, compared to isoform 1.

Source sequence(s)

AK139021, AK141175, AL672013

UniProtKB/TrEMBL

Q3UTW6, Q8BSM3

Conserved Domains (3) summary

cd01175
Location:254 → 338

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:21 → 247

COE1_DBD; Transcription factor COE1 DNA-binding domain

pfam16423
Location:339 → 382

COE1_HLH; Transcription factor COE1 helix-loop-helix domain
NM_001290711.1 → NP_001277640.1 transcription factor COE1 isoform 4

See identical proteins and their annotated locations for NP_001277640.1

Status: VALIDATED

Description

Transcript Variant: This variant (4) differs in its 5' UTR, uses a downstream start codon, and uses an alternate splice site in the central coding region, compared to variant 1. The encoded isoform (4) is shorter, compared to isoform 1.

Source sequence(s)

AK137389, AK141175, AL672013

UniProtKB/TrEMBL

Q5SWK4

Conserved Domains (3) summary

cd01175
Location:129 → 213

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 ...

pfam16423
Location:214 → 257

COE1_HLH; Transcription factor COE1 helix-loop-helix domain

cl17007
Location:1 → 114

COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
NM_001362569.1 → NP_001349498.1 transcription factor COE1 isoform 8

Status: VALIDATED

Source sequence(s)

AL603913, AL672013, AL732622

UniProtKB/TrEMBL

Q8CBL7

Conserved Domains (3) summary

cd11606
Location:10 → 215

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

cd01175
Location:231 → 315

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 ...

pfam16423
Location:316 → 359

COE1_HLH; Transcription factor COE1 helix-loop-helix domain
NM_001362571.1 → NP_001349500.1 transcription factor COE1 isoform 5

Status: VALIDATED

Source sequence(s)

AL603913, AL672013, AL732622

Consensus CDS

CCDS88148.1

UniProtKB/TrEMBL

Q5SWK8, Q8BSM3

Related

ENSMUSP00000104891.2, ENSMUST00000109268.2

Conserved Domains (3) summary

cd01175
Location:255 → 339

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:21 → 247

COE1_DBD; Transcription factor COE1 DNA-binding domain

pfam16423
Location:340 → 383

COE1_HLH; Transcription factor COE1 helix-loop-helix domain
NM_001362574.1 → NP_001349503.1 transcription factor COE1 isoform 6

Status: VALIDATED

Source sequence(s)

AL603913, AL672013, AL732622

UniProtKB/TrEMBL

Q8BSM3

Conserved Domains (3) summary

cd01175
Location:254 → 338

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:21 → 247

COE1_DBD; Transcription factor COE1 DNA-binding domain

pfam16423
Location:339 → 382

COE1_HLH; Transcription factor COE1 helix-loop-helix domain
NM_001362575.1 → NP_001349504.1 transcription factor COE1 isoform 7

Status: VALIDATED

Source sequence(s)

AL603913, AL672013, AL732622

UniProtKB/TrEMBL

Q8CBL7

Conserved Domains (3) summary

cd11606
Location:29 → 230

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

cd01175
Location:246 → 330

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 ...

pfam16423
Location:331 → 374

COE1_HLH; Transcription factor COE1 helix-loop-helix domain
NM_001362576.1 → NP_001349505.1 transcription factor COE1 isoform 9

Status: VALIDATED

Source sequence(s)

AL603913, AL672013, AL732622

Conserved Domains (3) summary

cd01175
Location:130 → 214

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 ...

pfam16423
Location:215 → 258

COE1_HLH; Transcription factor COE1 helix-loop-helix domain

cl17007
Location:1 → 114

COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
NM_001362577.1 → NP_001349506.1 transcription factor COE1 isoform 9

Status: VALIDATED

Source sequence(s)

AL603913, AL672013, AL732622

Conserved Domains (3) summary

cd01175
Location:130 → 214

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 ...

pfam16423
Location:215 → 258

COE1_HLH; Transcription factor COE1 helix-loop-helix domain

cl17007
Location:1 → 114

COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
NM_001362578.1 → NP_001349507.1 transcription factor COE1 isoform 10

Status: VALIDATED

Source sequence(s)

AL603913, AL672013, AL732622

Conserved Domains (3) summary

cd01175
Location:121 → 205

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 ...

pfam16423
Location:206 → 249

COE1_HLH; Transcription factor COE1 helix-loop-helix domain

cl17007
Location:1 → 114

COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
NM_001362579.1 → NP_001349508.1 transcription factor COE1 isoform 10

Status: VALIDATED

Source sequence(s)

AL603913, AL672013, AL732622

Conserved Domains (3) summary

cd01175
Location:121 → 205

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 ...

pfam16423
Location:206 → 249

COE1_HLH; Transcription factor COE1 helix-loop-helix domain

cl17007
Location:1 → 114

COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
NM_007897.3 → NP_031923.1 transcription factor COE1 isoform 2

See identical proteins and their annotated locations for NP_031923.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate splice site in the central coding region, compared to variant 1. The encoded isoform (2) is shorter, compared to isoform 1.

Source sequence(s)

AK035781, AK141175, AL672013

Consensus CDS

CCDS24566.1

UniProtKB/Swiss-Prot

Q07802

UniProtKB/TrEMBL

Q5SWK5, Q8BSM3

Related

ENSMUSP00000080020.6, ENSMUST00000081265.12

Conserved Domains (3) summary

cd01175
Location:262 → 346

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:21 → 247

COE1_DBD; Transcription factor COE1 DNA-binding domain

pfam16423
Location:347 → 390

COE1_HLH; Transcription factor COE1 helix-loop-helix 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

NC_000077.7 Reference GRCm39 C57BL/6J

Range

44502738..44898923

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036156287.1 → XP_036012180.1 transcription factor COE1 isoform X3

Conserved Domains (1) summary

cl17007
Location:21 → 185

COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
XM_017314250.3 → XP_017169739.1 transcription factor COE1 isoform X2

Conserved Domains (3) summary

cd01175
Location:130 → 214

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 ...

pfam16423
Location:215 → 258

COE1_HLH; Transcription factor COE1 helix-loop-helix domain

cl17007
Location:1 → 114

COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
XM_030245520.2 → XP_030101380.1 transcription factor COE1 isoform X1

UniProtKB/TrEMBL

Q8CBL7

Conserved Domains (3) summary

cd11606
Location:10 → 215

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

cd01175
Location:230 → 314

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 ...

pfam16423
Location:315 → 358

COE1_HLH; Transcription factor COE1 helix-loop-helix domain