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

Gene ID: 13591, updated on 31-Dec-2019

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
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
Expression
Broad expression in subcutaneous fat pad adult (RPKM 17.6), mammary gland adult (RPKM 17.0) and 18 other tissues See more
Orthologs

Genomic context

See Ebf1 in Genome Data Viewer
Location:
11 B1.1; 11 26.45 cM
Exon count:
18
Annotation release Status Assembly Chr Location
108 current GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (44618100..45008096)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 11 NC_000077.5 (44431636..44818677)

Chromosome 11 - NC_000077.6Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 4930597A21 gene Neighboring gene ring finger protein 145 Neighboring gene predicted gene, 51891 Neighboring gene predicted gene, 39815 Neighboring gene predicted gene, 51859 Neighboring gene predicted gene 12159 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)
  • Spontaneous (1) 
  • Targeted (4)  1 citation
  • Chemically induced (ENU) (6) 
  • Endonuclease-mediated (1) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • 9830166E18Rik

Gene Ontology Provided by MGI

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

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
    Related
    ENSMUSP00000099857.2, ENSMUST00000101326.9
    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, Q5SWK4
    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 ...
    cl17007
    Location:1114
    COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
    pfam16423
    Location:214257
    COE1_HLH; Transcription factor COE1 helix-loop-helix domain
  4. NM_001362569.1NP_001349498.1  transcription factor COE1 isoform 8

    Status: VALIDATED

    Source sequence(s)
    AL603913, AL672013, AL732622
    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
    Related
    ENSMUSP00000104891.1, ENSMUST00000109268.1
    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
    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
    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 ...
    cl17007
    Location:1114
    COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
    pfam16423
    Location:215258
    COE1_HLH; Transcription factor COE1 helix-loop-helix 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 ...
    cl17007
    Location:1114
    COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
    pfam16423
    Location:215258
    COE1_HLH; Transcription factor COE1 helix-loop-helix 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 ...
    cl17007
    Location:1114
    COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
    pfam16423
    Location:206249
    COE1_HLH; Transcription factor COE1 helix-loop-helix 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 ...
    cl17007
    Location:1114
    COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
    pfam16423
    Location:206249
    COE1_HLH; Transcription factor COE1 helix-loop-helix 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
    Q5SWK4, Q5SWK5, Q8CBL7
    Related
    ENSMUSP00000080020.5, ENSMUST00000081265.11
    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: Mus musculus Annotation Release 108 details...Open this link in a new tab

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

Reference GRCm38.p6 C57BL/6J

Genomic

  1. NC_000077.6 Reference GRCm38.p6 C57BL/6J

    Range
    44618100..45008096
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030245522.1XP_030101382.1  transcription factor COE1 isoform X4

  2. XM_017314250.2XP_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 ...
    cl17007
    Location:1114
    COE_DBD; Colier/Olf/Early B-cell factor (EBF) DNA Binding Domain
    pfam16423
    Location:215258
    COE1_HLH; Transcription factor COE1 helix-loop-helix domain
  3. XM_030245521.1XP_030101381.1  transcription factor COE1 isoform X3

  4. XM_030245520.1XP_030101380.1  transcription factor COE1 isoform X1

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