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etv5b ETS variant transcription factor 5b [ Danio rerio (zebrafish) ]

Gene ID: 30452, updated on 27-Mar-2024

Summary

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Official Symbol
etv5bprovided by ZNC
Official Full Name
ETS variant transcription factor 5bprovided by ZNC
Primary source
ZFIN:ZDB-GENE-991228-4
See related
Ensembl:ENSDARG00000044511 AllianceGenome:ZFIN:ZDB-GENE-991228-4
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
erm; erm1; cb805; wu:fe05h04; wu:fj66a04
Summary
Enables sequence-specific DNA binding activity. Acts upstream of or within several processes, including limb morphogenesis; nervous system development; and pronephros development. Predicted to be active in nucleus. Is expressed in several structures, including brain; eye; mesoderm; neural plate; and pharyngeal arch. Orthologous to human ETV5 (ETS variant transcription factor 5). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
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Genomic context

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Location:
chromosome: 6
Exon count:
12
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 6 NC_007117.7 (14032019..14040181, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 6 NC_007117.6 (13902582..13910734, complement)

Chromosome 6 - NC_007117.7Genomic Context describing neighboring genes Neighboring gene protein tyrosine phosphatase receptor type Nb Neighboring gene microRNA 153b Neighboring gene grancalcin Neighboring gene calcium channel, voltage-dependent, beta 4b subunit Neighboring gene inositol polyphosphate-4-phosphatase type I Ab

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Tight transcriptional control of the ETS domain factors Erm and Pea3 by Fgf signaling during early zebrafish development. Raible F, et al. Mech Dev, 2001 Sep. PMID 11520667
  2. Zebrafish pea3 and erm are general targets of FGF8 signaling. Roehl H, et al. Curr Biol, 2001 Apr 3. PMID 11413000
  3. Expression of the Ets transcription factors erm and pea3 in early zebrafish development. Münchberg SR, et al. Mech Dev, 1999 Nov. PMID 10534622
  4. Opposing actions of histone deacetylase 1 and Notch signalling restrict expression of erm and fgf20a to hindbrain rhombomere centres during zebrafish neurogenesis. Lightman EG, et al. Int J Dev Biol, 2011. PMID 21948707
  5. FGF3 and FGF8 mediate a rhombomere 4 signaling activity in the zebrafish hindbrain. Maves L, et al. Development, 2002 Aug. PMID 12135921

See all (115) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Development of hypothalamic serotoninergic neurons requires Fgf signalling via the ETS-domain transcription factor Etv5b
    Title: Development of hypothalamic serotoninergic neurons requires Fgf signalling via the ETS-domain transcription factor Etv5b.
  2. Hdac1 is required for expression of erm and fgf20a in rhombomeres; Hdac1-dependent expression of these two genes is attenuated in rhombomere boundary regions by Notch signalling activity
    Title: Opposing actions of histone deacetylase 1 and Notch signalling restrict expression of erm and fgf20a to hindbrain rhombomere centres during zebrafish neurogenesis.
Submit: New GeneRIF Correction

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables DNA-binding transcription factor activity IEA
Inferred from Electronic Annotation
more info
  
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
  
enables sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within hypothalamus cell differentiation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within limb morphogenesis IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within motor neuron axon guidance IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within pronephros development IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within regulation of mitotic cell cycle IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
ETS translocation variant 5b; ets variant 5b
Names
ets related protein erm

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_001309209.1 → NP_001296138.1  ETS translocation variant 5b isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    BX323042, CT594467, CT717580, EH470800
    UniProtKB/TrEMBL
    A0A2R8QC01, A0A8M1P213
    Related
    ENSDARP00000149157.1, ENSDART00000179765.1
    Conserved Domains (3) summary
    smart00413
    Location:376 → 463
    ETS; erythroblast transformation specific domain
    pfam04621
    Location:1 → 375
    ETS_PEA3_N; PEA3 subfamily ETS-domain transcription factor N terminal domain
    pfam04929
    Location:132 → 187
    Herpes_DNAp_acc; Herpes DNA replication accessory factor

  2. NM_131205.2 → NP_571280.2  ETS translocation variant 5b isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 3' coding region, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    BX323042, CT594467, CT717580, CT734048, EH470800
    UniProtKB/TrEMBL
    A0A8M1PBG6, F1QK52
    Related
    ENSDARP00000065360.4, ENSDART00000065361.5
    Conserved Domains (3) summary
    smart00413
    Location:376 → 461
    ETS; erythroblast transformation specific domain
    pfam04621
    Location:1 → 375
    ETS_PEA3_N; PEA3 subfamily ETS-domain transcription factor N terminal domain
    pfam04929
    Location:132 → 187
    Herpes_DNAp_acc; Herpes DNA replication accessory factor

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007117.7 Reference GRCz11 Primary Assembly

    Range
    14032019..14040181 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005165861.4 → XP_005165918.1  ets variant 5b isoform X2

    UniProtKB/TrEMBL
    A0A8M2BDC7
    Conserved Domains (3) summary
    smart00413
    Location:374 → 459
    ETS; erythroblast transformation specific domain
    pfam04621
    Location:1 → 373
    ETS_PEA3_N; PEA3 subfamily ETS-domain transcription factor N terminal domain
    pfam04929
    Location:132 → 187
    Herpes_DNAp_acc; Herpes DNA replication accessory factor

  2. XM_005165860.4 → XP_005165917.1  ets variant 5b isoform X1

    UniProtKB/TrEMBL
    A0A8M2BD54
    Conserved Domains (3) summary
    smart00413
    Location:374 → 461
    ETS; erythroblast transformation specific domain
    pfam04621
    Location:1 → 373
    ETS_PEA3_N; PEA3 subfamily ETS-domain transcription factor N terminal domain
    pfam04929
    Location:132 → 187
    Herpes_DNAp_acc; Herpes DNA replication accessory factor

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394628.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    174179..182390 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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