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    Pabpc4 poly(A) binding protein, cytoplasmic 4 [ Mus musculus (house mouse) ]

    Gene ID: 230721, updated on 12-Aug-2018

    Summary

    Official Symbol
    Pabpc4provided by MGI
    Official Full Name
    poly(A) binding protein, cytoplasmic 4provided by MGI
    Primary source
    MGI:MGI:2385206
    See related
    Ensembl:ENSMUSG00000011257 Vega:OTTMUSG00000008978
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Expression
    Ubiquitous expression in liver E14 (RPKM 71.8), liver E14.5 (RPKM 71.3) and 27 other tissues See more
    Orthologs

    Genomic context

    See Pabpc4 in Genome Data Viewer
    Location:
    4; 4 D2.2
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 4 NC_000070.6 (123282716..123298832)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 4 NC_000070.5 (122960154..122976075)

    Chromosome 4 - NC_000070.6Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108168976 Neighboring gene predicted gene 12900 Neighboring gene bone morphogenetic protein 8a Neighboring gene 3-oxoacid CoA transferase 2A Neighboring gene microtubule-actin crosslinking factor 1 Neighboring gene RIKEN cDNA D830031N03 gene

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (2) 

    Pathways from BioSystems

    • RNA degradation, organism-specific biosystem (from KEGG)
      RNA degradation, organism-specific biosystemThe correct processing, quality control and turnover of cellular RNA molecules are critical to many aspects in the expression of genetic information. In eukaryotes, two major pathways of mRNA decay e...
    • RNA degradation, conserved biosystem (from KEGG)
      RNA degradation, conserved biosystemThe correct processing, quality control and turnover of cellular RNA molecules are critical to many aspects in the expression of genetic information. In eukaryotes, two major pathways of mRNA decay e...
    • RNA transport, organism-specific biosystem (from KEGG)
      RNA transport, organism-specific biosystemRNA transport from the nucleus to the cytoplasm is fundamental for gene expression. The different RNA species that are produced in the nucleus are exported through the nuclear pore complexes (NPCs) ...
    • RNA transport, conserved biosystem (from KEGG)
      RNA transport, conserved biosystemRNA transport from the nucleus to the cytoplasm is fundamental for gene expression. The different RNA species that are produced in the nucleus are exported through the nuclear pore complexes (NPCs) ...
    • mRNA processing, organism-specific biosystem (from WikiPathways)
      mRNA processing, organism-specific biosystemAdapted from Reactome, see: [http://www.reactome.org/cgi-bin/eventbrowser_st_id?ST_ID=REACT_1675.1 REACT 1675.1] This process describes the conversion of precursor messenger RNA into mature messenge...
    • mRNA surveillance pathway, organism-specific biosystem (from KEGG)
      mRNA surveillance pathway, organism-specific biosystemThe mRNA surveillance pathway is a quality control mechanism that detects and degrades abnormal mRNAs. These pathways include nonsense-mediated mRNA decay (NMD), nonstop mRNA decay (NSD), and no-go ...
    • mRNA surveillance pathway, conserved biosystem (from KEGG)
      mRNA surveillance pathway, conserved biosystemThe mRNA surveillance pathway is a quality control mechanism that detects and degrades abnormal mRNAs. These pathways include nonsense-mediated mRNA decay (NMD), nonstop mRNA decay (NSD), and no-go ...

    General gene information

    Markers

    Homology

    Clone Names

    • MGC6685, MGC11665

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    mRNA 3'-UTR binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    mRNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    poly(A) binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    poly(A) binding ISO
    Inferred from Sequence Orthology
    more info
     
    NOT poly(C) RNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    poly(U) RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    poly(U) RNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    myeloid cell development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    regulation of mRNA stability IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    cytoplasmic stress granule IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    cytoplasmic stress granule ISO
    Inferred from Sequence Orthology
    more info
     
    cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    ribonucleoprotein complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    ribonucleoprotein complex ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    polyadenylate-binding protein 4

    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_001356377.1NP_001343306.1  polyadenylate-binding protein 4 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AL606917, BC056432
      Conserved Domains (1) summary
      TIGR01628
      Location:11611
      PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
    2. NM_130881.3NP_570951.2  polyadenylate-binding protein 4 isoform 1

      See identical proteins and their annotated locations for NP_570951.2

      Status: VALIDATED

      Source sequence(s)
      AL606917, BC056432
      Consensus CDS
      CCDS18614.1
      UniProtKB/TrEMBL
      Q6PHQ9
      Related
      ENSMUSP00000079070.6, OTTMUSP00000009342, ENSMUST00000080178.12
      Conserved Domains (6) summary
      TIGR01628
      Location:11640
      PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
      cd12378
      Location:1291
      RRM1_I_PABPs; RNA recognition motif 1 in type I polyadenylate-binding proteins
      cd12379
      Location:97172
      RRM2_I_PABPs; RNA recognition motif 2 found in type I polyadenylate-binding proteins
      cd12380
      Location:190269
      RRM3_I_PABPs; RNA recognition motif 3 found in type I polyadenylate-binding proteins
      cd12381
      Location:293370
      RRM4_I_PABPs; RNA recognition motif 4 in type I polyadenylate-binding proteins
      pfam00658
      Location:572639
      PABP; Poly-adenylate binding protein, unique domain
    3. NM_148917.3NP_683717.1  polyadenylate-binding protein 4 isoform 2

      See identical proteins and their annotated locations for NP_683717.1

      Status: VALIDATED

      Source sequence(s)
      AL606917, BC056432
      Consensus CDS
      CCDS18615.1
      UniProtKB/TrEMBL
      Q91YZ8
      Related
      ENSMUSP00000077794.5, OTTMUSP00000009343, ENSMUST00000078734.11
      Conserved Domains (6) summary
      TIGR01628
      Location:11595
      PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
      cd12378
      Location:1291
      RRM1_I_PABPs; RNA recognition motif 1 in type I polyadenylate-binding proteins
      cd12379
      Location:97172
      RRM2_I_PABPs; RNA recognition motif 2 found in type I polyadenylate-binding proteins
      cd12380
      Location:190269
      RRM3_I_PABPs; RNA recognition motif 3 found in type I polyadenylate-binding proteins
      cd12381
      Location:293370
      RRM4_I_PABPs; RNA recognition motif 4 in type I polyadenylate-binding proteins
      pfam00658
      Location:527594
      PABP; Poly-adenylate binding protein, unique domain

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000070.6 Reference GRCm38.p4 C57BL/6J

      Range
      123282716..123298832
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006503024.2XP_006503087.1  polyadenylate-binding protein 4 isoform X6

      Conserved Domains (4) summary
      TIGR01628
      Location:1402
      PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
      cd12381
      Location:71148
      RRM4_I_PABPs; RNA recognition motif 4 in type I polyadenylate-binding proteins
      pfam00658
      Location:334401
      PABP; Poly-adenylate binding protein, unique domain
      cl17169
      Location:147
      RRM_SF; RNA recognition motif (RRM) superfamily
    2. XM_006503020.2XP_006503083.1  polyadenylate-binding protein 4 isoform X1

      Conserved Domains (6) summary
      TIGR01628
      Location:11640
      PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
      cd12378
      Location:1291
      RRM1_I_PABPs; RNA recognition motif 1 in type I polyadenylate-binding proteins
      cd12379
      Location:97172
      RRM2_I_PABPs; RNA recognition motif 2 found in type I polyadenylate-binding proteins
      cd12380
      Location:190269
      RRM3_I_PABPs; RNA recognition motif 3 found in type I polyadenylate-binding proteins
      cd12381
      Location:293370
      RRM4_I_PABPs; RNA recognition motif 4 in type I polyadenylate-binding proteins
      pfam00658
      Location:572639
      PABP; Poly-adenylate binding protein, unique domain
    3. XM_006503022.2XP_006503085.1  polyadenylate-binding protein 4 isoform X3

      UniProtKB/TrEMBL
      A3KFU5
      Related
      ENSMUSP00000101850.1, OTTMUSP00000009344, ENSMUST00000106243.7, OTTMUST00000020378
      Conserved Domains (6) summary
      TIGR01628
      Location:11611
      PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
      cd12378
      Location:1291
      RRM1_I_PABPs; RNA recognition motif 1 in type I polyadenylate-binding proteins
      cd12379
      Location:97172
      RRM2_I_PABPs; RNA recognition motif 2 found in type I polyadenylate-binding proteins
      cd12380
      Location:190269
      RRM3_I_PABPs; RNA recognition motif 3 found in type I polyadenylate-binding proteins
      cd12381
      Location:293370
      RRM4_I_PABPs; RNA recognition motif 4 in type I polyadenylate-binding proteins
      pfam00658
      Location:543610
      PABP; Poly-adenylate binding protein, unique domain
    4. XM_017320151.1XP_017175640.1  polyadenylate-binding protein 4 isoform X4

      Conserved Domains (1) summary
      TIGR01628
      Location:11611
      PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
    5. XM_006503021.2XP_006503084.1  polyadenylate-binding protein 4 isoform X2

      UniProtKB/TrEMBL
      A3KFU8
      Related
      ENSMUSP00000101848.1, OTTMUSP00000009345, ENSMUST00000106241.7, OTTMUST00000020379
      Conserved Domains (6) summary
      TIGR01628
      Location:11624
      PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
      cd12378
      Location:1291
      RRM1_I_PABPs; RNA recognition motif 1 in type I polyadenylate-binding proteins
      cd12379
      Location:97172
      RRM2_I_PABPs; RNA recognition motif 2 found in type I polyadenylate-binding proteins
      cd12380
      Location:190269
      RRM3_I_PABPs; RNA recognition motif 3 found in type I polyadenylate-binding proteins
      cd12381
      Location:293370
      RRM4_I_PABPs; RNA recognition motif 4 in type I polyadenylate-binding proteins
      pfam00658
      Location:556623
      PABP; Poly-adenylate binding protein, unique domain
    6. XM_006503023.2XP_006503086.1  polyadenylate-binding protein 4 isoform X5

      Conserved Domains (4) summary
      TIGR01628
      Location:1418
      PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
      cd12381
      Location:71148
      RRM4_I_PABPs; RNA recognition motif 4 in type I polyadenylate-binding proteins
      pfam00658
      Location:350417
      PABP; Poly-adenylate binding protein, unique domain
      cl17169
      Location:147
      RRM_SF; RNA recognition motif (RRM) superfamily
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