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Neurod1 neuronal differentiation 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 29458, updated on 12-Aug-2018

Summary

Official Symbol
Neurod1provided by RGD
Official Full Name
neuronal differentiation 1provided by RGD
Primary source
RGD:3165
See related
Ensembl:ENSRNOG00000005609 Vega:OTTRNOG00000001284
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
Summary
a transcription factor; involved in neuronal differentiation [RGD, Feb 2006]
Expression
Restricted expression toward (RPKM 254.9) See more
Orthologs

Genomic context

See Neurod1 in Genome Data Viewer
Location:
3q24
Exon count:
2
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (66414314..66417617, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 3 NC_005102.3 (72974876..72978179, complement)

Chromosome 3 - NC_005102.4Genomic Context describing neighboring genes Neighboring gene integrin subunit alpha 4 Neighboring gene ceramide kinase-like Neighboring gene uncharacterized LOC102553021 Neighboring gene uncharacterized LOC108350408 Neighboring gene uncharacterized LOC102553121

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

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
DNA binding ISO
Inferred from Sequence Orthology
more info
 
DNA-binding transcription factor activity ISO
Inferred from Sequence Orthology
more info
 
E-box binding IEA
Inferred from Electronic Annotation
more info
 
E-box binding ISO
Inferred from Sequence Orthology
more info
 
RNA polymerase II activating transcription factor binding IEA
Inferred from Electronic Annotation
more info
 
RNA polymerase II activating transcription factor binding ISO
Inferred from Sequence Orthology
more info
 
RNA polymerase II proximal promoter sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
chromatin binding ISO
Inferred from Sequence Orthology
more info
 
chromatin binding ISS
Inferred from Sequence or Structural Similarity
more info
 
double-stranded DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
protein heterodimerization activity IEA
Inferred from Electronic Annotation
more info
 
protein heterodimerization activity ISO
Inferred from Sequence Orthology
more info
 
proximal promoter DNA-binding transcription activator activity, RNA polymerase II-specific IEA
Inferred from Electronic Annotation
more info
 
proximal promoter DNA-binding transcription activator activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
 
sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
contributes_to sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
transcription coactivator activity IEA
Inferred from Electronic Annotation
more info
 
transcription coactivator activity ISO
Inferred from Sequence Orthology
more info
 
transcription factor binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
amacrine cell differentiation ISO
Inferred from Sequence Orthology
more info
 
amacrine cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
anterior/posterior pattern specification IEA
Inferred from Electronic Annotation
more info
 
anterior/posterior pattern specification ISO
Inferred from Sequence Orthology
more info
 
camera-type eye development ISO
Inferred from Sequence Orthology
more info
 
cell fate commitment ISO
Inferred from Sequence Orthology
more info
 
cellular response to glucose stimulus IDA
Inferred from Direct Assay
more info
PubMed 
cerebellum development IEP
Inferred from Expression Pattern
more info
PubMed 
cerebellum development ISO
Inferred from Sequence Orthology
more info
 
dentate gyrus development ISO
Inferred from Sequence Orthology
more info
 
dentate gyrus development ISS
Inferred from Sequence or Structural Similarity
more info
 
embryonic organ morphogenesis IEA
Inferred from Electronic Annotation
more info
 
embryonic organ morphogenesis ISO
Inferred from Sequence Orthology
more info
 
endocrine pancreas development ISO
Inferred from Sequence Orthology
more info
 
endocrine pancreas development ISS
Inferred from Sequence or Structural Similarity
more info
 
enteroendocrine cell differentiation ISO
Inferred from Sequence Orthology
more info
 
enteroendocrine cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
glucose homeostasis ISO
Inferred from Sequence Orthology
more info
 
hindbrain development ISO
Inferred from Sequence Orthology
more info
 
inner ear development ISO
Inferred from Sequence Orthology
more info
 
inner ear development ISS
Inferred from Sequence or Structural Similarity
more info
 
insulin secretion IEA
Inferred from Electronic Annotation
more info
 
insulin secretion ISO
Inferred from Sequence Orthology
more info
 
negative regulation of JAK-STAT cascade IEA
Inferred from Electronic Annotation
more info
 
negative regulation of JAK-STAT cascade ISO
Inferred from Sequence Orthology
more info
 
negative regulation of type B pancreatic cell apoptotic process IEA
Inferred from Electronic Annotation
more info
 
negative regulation of type B pancreatic cell apoptotic process ISO
Inferred from Sequence Orthology
more info
 
neuron development IEA
Inferred from Electronic Annotation
more info
 
nitric oxide mediated signal transduction IEA
Inferred from Electronic Annotation
more info
 
nitric oxide mediated signal transduction ISO
Inferred from Sequence Orthology
more info
 
nucleocytoplasmic transport IDA
Inferred from Direct Assay
more info
PubMed 
pancreatic A cell fate commitment IEA
Inferred from Electronic Annotation
more info
 
pancreatic A cell fate commitment ISO
Inferred from Sequence Orthology
more info
 
pancreatic PP cell fate commitment IEA
Inferred from Electronic Annotation
more info
 
pancreatic PP cell fate commitment ISO
Inferred from Sequence Orthology
more info
 
positive regulation of DNA-binding transcription factor activity IEA
Inferred from Electronic Annotation
more info
 
positive regulation of DNA-binding transcription factor activity ISO
Inferred from Sequence Orthology
more info
 
positive regulation of apoptotic process ISO
Inferred from Sequence Orthology
more info
 
positive regulation of apoptotic process ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of cell differentiation ISO
Inferred from Sequence Orthology
more info
 
positive regulation of cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of neuron differentiation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of neuron differentiation ISO
Inferred from Sequence Orthology
more info
 
positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
positive regulation of transcription regulatory region DNA binding IEA
Inferred from Electronic Annotation
more info
 
positive regulation of transcription regulatory region DNA binding ISO
Inferred from Sequence Orthology
more info
 
positive regulation of transcription, DNA-templated ISO
Inferred from Sequence Orthology
more info
 
positive regulation of transcription, DNA-templated ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of cell cycle arrest ISO
Inferred from Sequence Orthology
more info
 
regulation of cell cycle arrest ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of intestinal epithelial structure maintenance ISO
Inferred from Sequence Orthology
more info
 
regulation of intestinal epithelial structure maintenance ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of neuron differentiation ISO
Inferred from Sequence Orthology
more info
 
response to drug IEP
Inferred from Expression Pattern
more info
PubMed 
response to glucose ISO
Inferred from Sequence Orthology
more info
 
signal transduction involved in regulation of gene expression IEA
Inferred from Electronic Annotation
more info
 
signal transduction involved in regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
RNA polymerase II transcription factor complex IEA
Inferred from Electronic Annotation
more info
 
RNA polymerase II transcription factor complex ISO
Inferred from Sequence Orthology
more info
 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasm ISO
Inferred from Sequence Orthology
more info
 
intracellular ISO
Inferred from Sequence Orthology
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
nucleus ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
neurogenic differentiation factor 1
Names
BHF-1
basic helix-loop-helix factor 1
neurogenic differentiation 1

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_019218.2NP_062091.1  neurogenic differentiation factor 1

    See identical proteins and their annotated locations for NP_062091.1

    Status: VALIDATED

    Source sequence(s)
    BC092367
    UniProtKB/Swiss-Prot
    Q64289
    Related
    ENSRNOP00000007662.5, OTTRNOP00000001145, ENSRNOT00000007662.7, OTTRNOT00000001964
    Conserved Domains (2) summary
    cd00083
    Location:100158
    HLH; Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, ...
    pfam12533
    Location:160284
    Neuro_bHLH; Neuronal helix-loop-helix transcription factor

RefSeqs of Annotated Genomes: Rattus norvegicus 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 Rnor_6.0 Primary Assembly

Genomic

  1. NC_005102.4 Reference Rnor_6.0 Primary Assembly

    Range
    66414314..66417617 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate Rn_Celera

Genomic

  1. AC_000071.1 Alternate Rn_Celera

    Range
    63819711..63823202 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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