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Dcp1b decapping mRNA 1B [ Rattus norvegicus (Norway rat) ]

Gene ID: 500305, updated on 10-Oct-2024

Summary

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Official Symbol
Dcp1bprovided by RGD
Official Full Name
decapping mRNA 1Bprovided by RGD
Primary source
RGD:1562214
See related
EnsemblRapid:ENSRNOG00000007340 AllianceGenome:RGD:1562214
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
RGD1562214
Summary
Predicted to enable mRNA binding activity. Predicted to be involved in cellular response to interleukin-17; methylguanosine-cap decapping; and protein localization to organelle. Predicted to be located in cytosol and intracellular membrane-bounded organelle. Predicted to be active in P-body. Orthologous to human DCP1B (decapping mRNA 1B). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Testes (RPKM 46.2), Heart (RPKM 34.3) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Dcp1b in Genome Data Viewer
Location:
4q42
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (154030181..154068038)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (152358267..152395747)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (151249654..151287018)

Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene calcium voltage-gated channel subunit alpha1 C Neighboring gene uncharacterized LOC134486627 Neighboring gene uncharacterized LOC134486628 Neighboring gene calcium voltage-gated channel auxiliary subunit alpha2delta 4 Neighboring gene uncharacterized LOC134486630 Neighboring gene leucine-rich repeats and transmembrane domains 2

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

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Related articles in PubMed

  1. The role of disordered protein regions in the assembly of decapping complexes and RNP granules. Jonas S, et al. Genes Dev, 2013 Dec 15. PMID 24352420, Free PMC Article
  2. MicroRNA-23a promotes myelination in the central nervous system. Lin ST, et al. Proc Natl Acad Sci U S A, 2013 Oct 22. PMID 24101522, Free PMC Article
  3. Defining the membrane proteome of NK cells. Ghosh D, et al. J Mass Spectrom, 2010 Jan. PMID 19946888
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables enzyme activator activity IEA
Inferred from Electronic Annotation
more info
  
enables mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in cellular response to interleukin-17 ISO
Inferred from Sequence Orthology
more info
  
involved_in deadenylation-dependent decapping of nuclear-transcribed mRNA IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in deadenylation-independent decapping of nuclear-transcribed mRNA IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of catalytic activity IEA
Inferred from Electronic Annotation
more info
  
involved_in protein localization to P-body ISO
Inferred from Sequence Orthology
more info
  
involved_in protein localization to nucleus ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in P-body IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in P-body ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
mRNA-decapping enzyme 1B
Names
DCP1 decapping enzyme homolog b
XP_003749869.1
XP_008761494.1
XP_038964972.1
XP_063142924.1
XP_575654.3

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_001431840.1 → NP_001418769.1  mRNA-decapping enzyme 1B isoform 1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000004
    UniProtKB/TrEMBL
    A6IL78, D3ZZJ7

  2. NM_001431841.1 → NP_001418770.1  mRNA-decapping enzyme 1B isoform 2

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000004

  3. NM_001431842.1 → NP_001418771.1  mRNA-decapping enzyme 1B isoform 3

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000004

  4. NM_001431843.1 → NP_001418772.1  mRNA-decapping enzyme 1B isoform 4

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000004

  5. NM_001431844.1 → NP_001418773.1  mRNA-decapping enzyme 1B isoform 5

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000004

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086022.1 Reference GRCr8

    Range
    154030181..154068038
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_008763272.4 → XP_008761494.1  mRNA-decapping enzyme 1B isoform X5

    See identical proteins and their annotated locations for XP_008761494.1

    Conserved Domains (2) summary
    cd09804
    Location:16 → 131
    Dcp1; mRNA decapping enzyme 1 (Dcp1)
    pfam16741
    Location:562 → 603
    mRNA_decap_C; mRNA-decapping enzyme C-terminus

  2. XM_575654.9 → XP_575654.3  mRNA-decapping enzyme 1B isoform X1

    Related
    ENSRNOP00000009832.7, ENSRNOT00000009832.9
    Conserved Domains (3) summary
    cd09804
    Location:16 → 131
    Dcp1; mRNA decapping enzyme 1 (Dcp1)
    PHA03247
    Location:179 → 430
    PHA03247; large tegument protein UL36; Provisional
    pfam16741
    Location:539 → 580
    mRNA_decap_C; mRNA-decapping enzyme C-terminus

  3. XM_003749821.6 → XP_003749869.1  mRNA-decapping enzyme 1B isoform X2

    Conserved Domains (2) summary
    cd09804
    Location:16 → 131
    Dcp1; mRNA decapping enzyme 1 (Dcp1)
    pfam16741
    Location:506 → 547
    mRNA_decap_C; mRNA-decapping enzyme C-terminus

  4. XM_039109044.2 → XP_038964972.1  mRNA-decapping enzyme 1B isoform X4

    Conserved Domains (1) summary
    pfam16741
    Location:368 → 409
    mRNA_decap_C; mRNA-decapping enzyme C-terminus

  5. XM_063286854.1 → XP_063142924.1  mRNA-decapping enzyme 1B isoform X3

Nucleotide Protein Strain
Heading Accession and Version

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