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    DCP1A decapping mRNA 1A [ Homo sapiens (human) ]

    Gene ID: 55802, updated on 3-Nov-2024

    Summary

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    Official Symbol
    DCP1Aprovided by HGNC
    Official Full Name
    decapping mRNA 1Aprovided by HGNC
    Primary source
    HGNC:HGNC:18714
    See related
    Ensembl:ENSG00000272886 MIM:607010; AllianceGenome:HGNC:18714
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    SMIF; SMAD4IP1; HSA275986; Nbla00360
    Summary
    Decapping is a key step in general and regulated mRNA decay. The protein encoded by this gene is a decapping enzyme. This protein and another decapping enzyme form a decapping complex, which interacts with the nonsense-mediated decay factor hUpf1 and may be recruited to mRNAs containing premature termination codons. This protein also participates in the TGF-beta signaling pathway. Alternative splicing of this gene results in multiple transcript variants. [provided by RefSeq, Feb 2014]
    Expression
    Ubiquitous expression in bone marrow (RPKM 10.4), ovary (RPKM 7.6) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See DCP1A in Genome Data Viewer
    Location:
    3p21.1
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (53283429..53347543, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (53316420..53380518, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (53317449..53381570, complement)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr3:53261945-53263144 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:53270389-53271197 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:53274891-53275886 Neighboring gene transketolase Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14464 Neighboring gene Sharpr-MPRA regulatory region 10976 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr3:53303617-53304816 Neighboring gene uncharacterized LOC107986087 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:53305434-53306319 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:53307415-53307967 Neighboring gene small nucleolar RNA U13 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:53328175-53328676 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:53328677-53329176 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_70700 Neighboring gene uncharacterized LOC124909380 Neighboring gene small nucleolar RNA, C/D box 38C Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:53380578-53381168 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:53381169-53381759 Neighboring gene uncharacterized LOC105377094 Neighboring gene Sharpr-MPRA regulatory region 4971 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:53404491-53405116 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14465 Neighboring gene small nucleolar RNA SNORA26

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. DCP1A is an unfavorable prognostic-related enhancer RNA in hepatocellular carcinoma. Wu H, et al. Aging (Albany NY), 2021 Oct 4. PMID 34609335, Free PMC Article
    2. Expression of DCP1a in gastric cancer and its biological function and mechanism in chemotherapy resistance in gastric cancer cells. Ruan T, et al. Dig Liver Dis, 2020 Nov. PMID 32646734
    3. Overexpression of mRNA-decapping enzyme 1a predicts disease-specific survival in malignant melanoma. Tang Y, et al. Melanoma Res, 2018 Feb. PMID 29076924
    4. The P body protein Dcp1a is hyper-phosphorylated during mitosis. Aizer A, et al. PLoS One, 2013. PMID 23300942, Free PMC Article
    5. Genetic variants in the PIWI-piRNA pathway gene DCP1A predict melanoma disease-specific survival. Zhang W, et al. Int J Cancer, 2016 Dec 15. PMID 27578485, Free PMC Article

    See all (131) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. DCP1A is an unfavorable prognostic-related enhancer RNA in hepatocellular carcinoma.
      Title: DCP1A is an unfavorable prognostic-related enhancer RNA in hepatocellular carcinoma.
    2. Expression of DCP1a in gastric cancer and its biological function and mechanism in chemotherapy resistance in gastric cancer cells.
      Title: Expression of DCP1a in gastric cancer and its biological function and mechanism in chemotherapy resistance in gastric cancer cells.
    3. Decapping enzyme 1A breaks X-chromosome symmetry by controlling Tsix elongation and RNA turnover.
      Title: Decapping enzyme 1A breaks X-chromosome symmetry by controlling Tsix elongation and RNA turnover.
    4. Human MARF1 is an endoribonuclease that interacts with the DCP1:DCP2 decapping complex and degrades target mRNAs.
      Title: Human MARF1 is an endoribonuclease that interacts with the DCP1:2 decapping complex and degrades target mRNAs.
    5. Results suggest a molecular mechanism of long non-coding RNA (MALAT1)-miR203-mRNA-decapping enzymes 1a (DCP1A) axis which is involved with the development and contributes to the malignancy of colorectal cancers.
      Title: MALAT1 promotes the colorectal cancer malignancy by increasing DCP1A expression and miR203 downregulation.
    6. Overexpression of DCP1A is associated with malignant melanoma.
      Title: Overexpression of mRNA-decapping enzyme 1a predicts disease-specific survival in malignant melanoma.
    7. The results suggest that overexpressed Dcp1a and GW182 can form different cytoplasmic aggregates and play distinct biological roles in the miRNA pathway.
      Title: Dcp1a and GW182 Induce Distinct Cellular Aggregates and Have Different Effects on microRNA Pathway.
    8. The E3 ligase TRAF6 binds to DCP1a and indirectly regulates DCP1a phosphorylation, expression of decapping factors, and gene-specific mRNA decay.
      Title: K63-Ubiquitylation and TRAF6 Pathways Regulate Mammalian P-Body Formation and mRNA Decapping.
    9. DCP1A rs11551405 may have a prognostic effect on survival of CM patients.
      Title: Genetic variants in the PIWI-piRNA pathway gene DCP1A predict melanoma disease-specific survival.
    10. The assembly of EDC4 and Dcp1a into processing bodies is critical for the translational regulation of IL-6.
      Title: The Assembly of EDC4 and Dcp1a into Processing Bodies Is Critical for the Translational Regulation of IL-6.
    Submit: New GeneRIF Correction See all GeneRIFs (20)

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    Genome-wide association study of electrocardiographic parameters identifies a new association for PR interval and confirms previously reported associations.
    EBI GWAS Catalog
    Identification of heart rate-associated loci and their effects on cardiac conduction and rhythm disorders.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    HIV-1 interactions

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    Protein interactions

    Protein Gene Interaction Pubs
    Pr55(Gag) gag The efficiency of incorporation of Mov10, A3G, and A3F into viral particles, which contains both HIV-1 Gag and genomic RNA, is much higher than that of the other P-body proteins AGO2, DCP1a, DCP2, and DDX6 PubMed
    gag HIV-1 Gag interacts with DCP1 in a miRNA- and P-body-independent manner PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ21691

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables 5'-(N(7)-methylguanosine 5'-triphospho)-[mRNA] hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables enzyme activator activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables kinesin binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    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 mRNA methylguanosine-cap decapping IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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 cytoplasmic stress granule IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in P-body IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in P-body ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasmic ribonucleoprotein granule IDA
    Inferred from Direct Assay
    more info
    		  
    located_in cytosol TAS
    Traceable Author Statement
    more info
    		  
    located_in dendrite IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane HDA PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    mRNA-decapping enzyme 1A
    Names
    DCP1 decapping enzyme homolog A
    DCP1 decapping enzyme-like protein A
    Smad4-interacting transcriptional co-activator
    decapping enzyme hDcp1a
    putative protein product of Nbla00360
    transcription factor SMIF
    NP_001277133.1
    NP_001277134.1
    NP_001277135.1
    NP_001277136.1
    NP_060873.4

    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_001290204.2 → NP_001277133.1  mRNA-decapping enzyme 1A isoform b

      See identical proteins and their annotated locations for NP_001277133.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon in the central coding region, compared to variant 1, resulting in an isoform (b) that is shorter than isoform a.
      Source sequence(s)
      AC112218, AK295205, CD676826, DC371232
      Consensus CDS
      CCDS74946.1
      UniProtKB/TrEMBL
      A0A0S2Z5K3
      Related
      ENSP00000476046.2, ENST00000294241.10
      Conserved Domains (2) summary
      cd09804
      Location:6 → 126
      Dcp1; mRNA decapping enzyme 1 (Dcp1)
      pfam16741
      Location:501 → 543
      mRNA_decap_C; mRNA-decapping enzyme C-terminus

    2. NM_001290205.2 → NP_001277134.1  mRNA-decapping enzyme 1A isoform c

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) contains an additional internal exon in the 5' region, resulting in translation initiation at an alternate start codon, compared to variant 1. The encoded isoform (c) has a distinct N-terminus and is shorter than isoform a.
      Source sequence(s)
      AC112218, AY146651, BI769171, CD676826, DC371232
      UniProtKB/TrEMBL
      A0A0S2Z5R3, Q3LIB4
      Conserved Domains (2) summary
      pfam16741
      Location:467 → 509
      mRNA_decap_C; mRNA-decapping enzyme C-terminus
      cl17171
      Location:20 → 54
      PH-like; Pleckstrin homology-like domain

    3. NM_001290206.2 → NP_001277135.1  mRNA-decapping enzyme 1A isoform d

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) lacks an alternate internal exon in the 5' region, and it thus differs in its 5' UTR and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (d) is shorter at the N-terminus, compared to isoform a.
      Source sequence(s)
      AC112218, AY146651, BP284272, CD676826
      UniProtKB/Swiss-Prot
      Q9NPI6
      Conserved Domains (1) summary
      pfam16741
      Location:418 → 460
      mRNA_decap_C; mRNA-decapping enzyme C-terminus

    4. NM_001290207.2 → NP_001277136.1  mRNA-decapping enzyme 1A isoform e

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) lacks an alternate internal exon in the 5' region, and it thus differs in its 5' UTR and initiates translation at a downstream in-frame start codon, and it also lacks an alternate in-frame exon in the central coding region, compared to variant 1. The encoded isoform (e) is shorter at the N-terminus, compared to isoform a.
      Source sequence(s)
      AA129009, AC112218, AK295205, CD676826, DC371232
      UniProtKB/Swiss-Prot
      Q9NPI6
      Conserved Domains (1) summary
      pfam16741
      Location:380 → 422
      mRNA_decap_C; mRNA-decapping enzyme C-terminus

    5. NM_018403.7 → NP_060873.4  mRNA-decapping enzyme 1A isoform a

      See identical proteins and their annotated locations for NP_060873.4

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (a).
      Source sequence(s)
      AC112218, AY146651, CD676826
      Consensus CDS
      CCDS46847.2
      UniProtKB/Swiss-Prot
      B4DHN9, Q9NPI6, U3KQM8
      UniProtKB/TrEMBL
      A0A0S2Z5R3
      Related
      ENSP00000476386.1, ENST00000610213.6
      Conserved Domains (3) summary
      cd09804
      Location:6 → 126
      Dcp1; mRNA decapping enzyme 1 (Dcp1)
      pfam16741
      Location:539 → 581
      mRNA_decap_C; mRNA-decapping enzyme C-terminus
      cl25496
      Location:268 → 532
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      53283429..53347543 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      53316420..53380518 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9NPI6.3 GenPept UniProtKB/Swiss-Prot:Q9NPI6

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