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Nle1 notchless homolog 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 303372, updated on 10-Oct-2019

Summary

Official Symbol
Nle1provided by RGD
Official Full Name
notchless homolog 1provided by RGD
Primary source
RGD:1308301
See related
Ensembl:ENSRNOG00000008287
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
RGD1308301
Expression
Biased expression in Thymus (RPKM 55.5), Muscle (RPKM 41.7) and 9 other tissues See more
Orthologs

Genomic context

See Nle1 in Genome Data Viewer
Location:
10q26
Exon count:
14
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (70250959..70261880, complement)
106 current Rn_Celera (GCF_000002265.2) 10 AC_000078.1 (66778297..66786868, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 10 NC_005109.3 (69882122..69893084, complement)

Chromosome 10 - NC_005109.4Genomic Context describing neighboring genes Neighboring gene DNA ligase 3 Neighboring gene ring finger and FYVE-like domain containing E3 ubiquitin protein ligase Neighboring gene RAD51 paralog D Neighboring gene uncharacterized LOC108352114 Neighboring gene fibronectin type III domain containing 8 Neighboring gene unc-45 myosin chaperone B Neighboring gene schlafen family member 5

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

General gene information

Markers

Homology

  • Homologs of the Nle1 gene: The Nle1 gene is conserved in human, chimpanzee, Rhesus monkey, dog, cow, mouse, chicken, zebrafish, fruit fly, mosquito, C.elegans, S.cerevisiae, K.lactis, E.gossypii, S.pombe, M.oryzae, N.crassa, A.thaliana, rice, and frog.
  • Orthologs from Annotation Pipeline: 297 organisms have orthologs with human gene Nle1
  • Orthologs

Gene Ontology Provided by RGD

Process Evidence Code Pubs
Notch signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Notch signaling pathway ISO
Inferred from Sequence Orthology
more info
PubMed 
hematopoietic stem cell homeostasis IEA
Inferred from Electronic Annotation
more info
 
hematopoietic stem cell homeostasis ISO
Inferred from Sequence Orthology
more info
PubMed 
inner cell mass cell differentiation IEA
Inferred from Electronic Annotation
more info
 
inner cell mass cell differentiation ISO
Inferred from Sequence Orthology
more info
PubMed 
kidney development IEA
Inferred from Electronic Annotation
more info
 
kidney development ISO
Inferred from Sequence Orthology
more info
PubMed 
negative regulation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway IEA
Inferred from Electronic Annotation
more info
 
negative regulation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway ISO
Inferred from Sequence Orthology
more info
PubMed 
negative regulation of mitotic cell cycle IEA
Inferred from Electronic Annotation
more info
 
negative regulation of mitotic cell cycle ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of canonical Wnt signaling pathway IEA
Inferred from Electronic Annotation
more info
 
positive regulation of canonical Wnt signaling pathway ISO
Inferred from Sequence Orthology
more info
PubMed 
ribosomal large subunit assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ribosomal large subunit biogenesis ISO
Inferred from Sequence Orthology
more info
PubMed 
skeletal system morphogenesis IEA
Inferred from Electronic Annotation
more info
 
skeletal system morphogenesis ISO
Inferred from Sequence Orthology
more info
PubMed 
somitogenesis IEA
Inferred from Electronic Annotation
more info
 
somitogenesis ISO
Inferred from Sequence Orthology
more info
PubMed 
Component Evidence Code Pubs
nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleolus ISO
Inferred from Sequence Orthology
more info
PubMed 
nucleoplasm ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
notchless protein homolog 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_001127534.1NP_001121006.1  notchless protein homolog 1

    See identical proteins and their annotated locations for NP_001121006.1

    Status: PROVISIONAL

    Source sequence(s)
    BC166567
    UniProtKB/TrEMBL
    B2GV82
    Related
    ENSRNOP00000011320.5, ENSRNOT00000011320.6
    Conserved Domains (4) summary
    COG2319
    Location:109487
    WD40; WD40 repeat [General function prediction only]
    cd00200
    Location:108486
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    pfam08154
    Location:1979
    NLE; NLE (NUC135) domain
    sd00039
    Location:161199
    7WD40; WD40 repeat [structural motif]

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_005109.4 Reference Rnor_6.0 Primary Assembly

    Range
    70250959..70261880 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006246995.3XP_006247057.1  notchless protein homolog 1 isoform X1

    See identical proteins and their annotated locations for XP_006247057.1

    UniProtKB/TrEMBL
    B2GV82
    Conserved Domains (4) summary
    COG2319
    Location:109487
    WD40; WD40 repeat [General function prediction only]
    cd00200
    Location:108486
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    pfam08154
    Location:1979
    NLE; NLE (NUC135) domain
    sd00039
    Location:161199
    7WD40; WD40 repeat [structural motif]
  2. XM_006246994.3XP_006247056.1  notchless protein homolog 1 isoform X1

    See identical proteins and their annotated locations for XP_006247056.1

    UniProtKB/TrEMBL
    B2GV82
    Conserved Domains (4) summary
    COG2319
    Location:109487
    WD40; WD40 repeat [General function prediction only]
    cd00200
    Location:108486
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    pfam08154
    Location:1979
    NLE; NLE (NUC135) domain
    sd00039
    Location:161199
    7WD40; WD40 repeat [structural motif]

Alternate Rn_Celera

Genomic

  1. AC_000078.1 Alternate Rn_Celera

    Range
    66778297..66786868 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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