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Ebf1 EBF transcription factor 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 116543, updated on 30-Sep-2021

Summary

Official Symbol
Ebf1provided by RGD
Official Full Name
EBF transcription factor 1provided by RGD
Primary source
RGD:620953
See related
EnsemblRapid:ENSRNOG00000028845
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Ebf; Olf1
Summary
transcription factor that may regulate several olfactory-specific genes [RGD, Feb 2006]
Expression
Biased expression in Spleen (RPKM 50.7), Heart (RPKM 38.6) and 8 other tissues See more
Orthologs
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Genomic context

See Ebf1 in Genome Data Viewer
Location:
10q12
Exon count:
20
Annotation release Status Assembly Chr Location
108 current mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (29095858..29489142)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (23654849..24051627)

Chromosome 10 - NC_051345.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120095078 Neighboring gene uncharacterized LOC120095081 Neighboring gene uncharacterized LOC120095080 Neighboring gene uncharacterized LOC120095079 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene uncharacterized LOC102550742 Neighboring gene uncharacterized LOC120095082

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Component Evidence Code Pubs
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
transcription factor COE1
Names
OE-1
early B-cell factor (olfactory neuronal transcription factor 1)
early B-cell factor 1
o/E-1
olf-1
olfactory neuronal transcription factor

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_053820.2NP_446272.2  transcription factor COE1

    See identical proteins and their annotated locations for NP_446272.2

    Status: VALIDATED

    Source sequence(s)
    FQ175272, FQ177833, FQ232013, L24051
    UniProtKB/Swiss-Prot
    Q63398
    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

RefSeqs of Annotated Genomes: Rattus norvegicus 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 mRatBN7.2 Primary Assembly

Genomic

  1. NC_051345.1 Reference mRatBN7.2 Primary Assembly

    Range
    29095858..29489142
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006246120.4XP_006246182.1  transcription factor COE1 isoform X7

    See identical proteins and their annotated locations for XP_006246182.1

    Conserved Domains (3) summary
    cd01175
    Location:249333
    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:7233
    COE1_DBD; Transcription factor COE1 DNA-binding domain
    pfam16423
    Location:334377
    COE1_HLH; Transcription factor COE1 helix-loop-helix domain
  2. XM_017596958.2XP_017452447.1  transcription factor COE1 isoform X3

    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. XM_006246117.4XP_006246179.1  transcription factor COE1 isoform X1

    See identical proteins and their annotated locations for XP_006246179.1

    Related
    ENSRNOP00000068319.2, ENSRNOT00000076664.3
    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
  4. XM_006246118.3XP_006246180.1  transcription factor COE1 isoform X2

    See identical proteins and their annotated locations for XP_006246180.1

    Related
    ENSRNOP00000067433.3, ENSRNOT00000071435.3
    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
  5. XM_039085048.1XP_038940976.1  transcription factor COE1 isoform X5

    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
  6. XM_039085049.1XP_038940977.1  transcription factor COE1 isoform X6

    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
  7. XM_017596960.2XP_017452449.1  transcription factor COE1 isoform X4

  8. XM_017596962.2XP_017452451.1  transcription factor COE1 isoform X8

    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
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