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

Gene ID: 13591, updated on 12-May-2024

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 transcription, DNA-templated. Located in nucleus. Is expressed in several structures, including central nervous system; genitourinary system; integumental system; limb mesenchyme; and sensory organ. Used to study lipodystrophy. Orthologous to human EBF1 (EBF transcription factor 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in subcutaneous fat pad adult (RPKM 17.6), mammary gland adult (RPKM 17.0) and 18 other tissues See more
Orthologs
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Genomic context

See Ebf1 in Genome Data Viewer
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_000077.7Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:44358832-44358985 Neighboring gene RIKEN cDNA 4930597A21 gene Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:44391554-44391757 Neighboring gene ring finger protein 145 Neighboring gene predicted gene, 51891 Neighboring gene STARR-positive B cell enhancer mm9_chr11:44399542-44399843 Neighboring gene STARR-positive B cell enhancer ABC_E6970 Neighboring gene STARR-positive B cell enhancer mm9_chr11:44449840-44450140 Neighboring gene predicted gene, 39815 Neighboring gene STARR-positive B cell enhancer ABC_E8392 Neighboring gene STARR-positive B cell enhancer ABC_E5217 Neighboring gene STARR-seq mESC enhancer starr_29281 Neighboring gene STARR-positive B cell enhancer ABC_E10669 Neighboring gene STARR-seq mESC enhancer starr_29286 Neighboring gene STARR-seq mESC enhancer starr_29287 Neighboring gene STARR-positive B cell enhancer ABC_E1821 Neighboring gene STARR-seq mESC enhancer starr_29288 Neighboring gene STARR-seq mESC enhancer starr_29289 Neighboring gene STARR-seq mESC enhancer starr_29290 Neighboring gene STARR-positive B cell enhancer mm9_chr11:44713071-44713372 Neighboring gene STARR-seq mESC enhancer starr_29291 Neighboring gene STARR-positive B cell enhancer mm9_chr11:44763908-44764208 Neighboring gene STARR-seq mESC enhancer starr_29292 Neighboring gene STARR-positive B cell enhancer ABC_E6972 Neighboring gene STARR-seq mESC enhancer starr_29293 Neighboring gene STARR-seq mESC enhancer starr_29294 Neighboring gene predicted gene, 51859 Neighboring gene predicted gene 12159 Neighboring gene STARR-seq mESC enhancer starr_29295 Neighboring gene tRNA-yW synthesizing tRNA-yW synthesizing pseudogene

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • 9830166E18Rik

Gene Ontology Provided by MGI

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

Preferred Names
transcription factor COE1
Names
early B-cell factor

NCBI Reference Sequences (RefSeq)

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)

  1. NM_001290709.1NP_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:263347
    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:21247
    COE1_DBD; Transcription factor COE1 DNA-binding domain
    pfam16423
    Location:348391
    COE1_HLH; Transcription factor COE1 helix-loop-helix domain
  2. NM_001290710.1NP_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:254338
    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:21247
    COE1_DBD; Transcription factor COE1 DNA-binding domain
    pfam16423
    Location:339382
    COE1_HLH; Transcription factor COE1 helix-loop-helix domain
  3. NM_001290711.1NP_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:129213
    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:214257
    COE1_HLH; Transcription factor COE1 helix-loop-helix domain
    cl17007
    Location:1114
    COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
  4. NM_001362569.1NP_001349498.1  transcription factor COE1 isoform 8

    Status: VALIDATED

    Source sequence(s)
    AL603913, AL672013, AL732622
    UniProtKB/TrEMBL
    Q8CBL7
    Conserved Domains (3) summary
    cd11606
    Location:10215
    COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
    cd01175
    Location:231315
    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:316359
    COE1_HLH; Transcription factor COE1 helix-loop-helix domain
  5. NM_001362571.1NP_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:255339
    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:21247
    COE1_DBD; Transcription factor COE1 DNA-binding domain
    pfam16423
    Location:340383
    COE1_HLH; Transcription factor COE1 helix-loop-helix domain
  6. NM_001362574.1NP_001349503.1  transcription factor COE1 isoform 6

    Status: VALIDATED

    Source sequence(s)
    AL603913, AL672013, AL732622
    UniProtKB/TrEMBL
    Q8BSM3
    Conserved Domains (3) summary
    cd01175
    Location:254338
    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:21247
    COE1_DBD; Transcription factor COE1 DNA-binding domain
    pfam16423
    Location:339382
    COE1_HLH; Transcription factor COE1 helix-loop-helix domain
  7. NM_001362575.1NP_001349504.1  transcription factor COE1 isoform 7

    Status: VALIDATED

    Source sequence(s)
    AL603913, AL672013, AL732622
    UniProtKB/TrEMBL
    Q8CBL7
    Conserved Domains (3) summary
    cd11606
    Location:29230
    COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
    cd01175
    Location:246330
    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:331374
    COE1_HLH; Transcription factor COE1 helix-loop-helix domain
  8. NM_001362576.1NP_001349505.1  transcription factor COE1 isoform 9

    Status: VALIDATED

    Source sequence(s)
    AL603913, AL672013, AL732622
    Conserved Domains (3) summary
    cd01175
    Location:130214
    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:215258
    COE1_HLH; Transcription factor COE1 helix-loop-helix domain
    cl17007
    Location:1114
    COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
  9. NM_001362577.1NP_001349506.1  transcription factor COE1 isoform 9

    Status: VALIDATED

    Source sequence(s)
    AL603913, AL672013, AL732622
    Conserved Domains (3) summary
    cd01175
    Location:130214
    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:215258
    COE1_HLH; Transcription factor COE1 helix-loop-helix domain
    cl17007
    Location:1114
    COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
  10. NM_001362578.1NP_001349507.1  transcription factor COE1 isoform 10

    Status: VALIDATED

    Source sequence(s)
    AL603913, AL672013, AL732622
    Conserved Domains (3) summary
    cd01175
    Location:121205
    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:206249
    COE1_HLH; Transcription factor COE1 helix-loop-helix domain
    cl17007
    Location:1114
    COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
  11. NM_001362579.1NP_001349508.1  transcription factor COE1 isoform 10

    Status: VALIDATED

    Source sequence(s)
    AL603913, AL672013, AL732622
    Conserved Domains (3) summary
    cd01175
    Location:121205
    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:206249
    COE1_HLH; Transcription factor COE1 helix-loop-helix domain
    cl17007
    Location:1114
    COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
  12. NM_007897.3NP_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:262346
    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:21247
    COE1_DBD; Transcription factor COE1 DNA-binding domain
    pfam16423
    Location:347390
    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

  1. NC_000077.7 Reference GRCm39 C57BL/6J

    Range
    44502738..44898923
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

    Conserved Domains (1) summary
    cl17007
    Location:21185
    COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
  2. XM_017314250.3XP_017169739.1  transcription factor COE1 isoform X2

    Conserved Domains (3) summary
    cd01175
    Location:130214
    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:215258
    COE1_HLH; Transcription factor COE1 helix-loop-helix domain
    cl17007
    Location:1114
    COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
  3. XM_030245520.2XP_030101380.1  transcription factor COE1 isoform X1

    UniProtKB/TrEMBL
    Q8CBL7
    Conserved Domains (3) summary
    cd11606
    Location:10215
    COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
    cd01175
    Location:230314
    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:315358
    COE1_HLH; Transcription factor COE1 helix-loop-helix domain