Format

Send to:

Choose Destination
    • Showing Current items.

    Rpap2 RNA polymerase II associated protein 2 [ Mus musculus (house mouse) ]

    Gene ID: 231571, updated on 2-Oct-2018

    Summary

    Official Symbol
    Rpap2provided by MGI
    Official Full Name
    RNA polymerase II associated protein 2provided by MGI
    Primary source
    MGI:MGI:2141142
    See related
    Ensembl:ENSMUSG00000033773 Vega:OTTMUSG00000023390
    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
    Also known as
    AW060207
    Expression
    Ubiquitous expression in bladder adult (RPKM 2.6), testis adult (RPKM 2.6) and 26 other tissues See more
    Orthologs

    Genomic context

    See Rpap2 in Genome Data Viewer
    Location:
    5; 5 E5-F
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 5 NC_000071.6 (107597373..107661853)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 5 NC_000071.5 (108026399..108090857)

    Chromosome 5 - NC_000071.6Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA A830010M20 gene Neighboring gene RIKEN cDNA 1700028K03 gene Neighboring gene glomulin, FKBP associated protein Neighboring gene RIKEN cDNA A930041C12 gene Neighboring gene RIKEN cDNA 4930428O21 gene Neighboring gene RIKEN cDNA A430072P03 gene Neighboring gene growth factor independent 1 transcription repressor

    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 (1) 

    Pathways from BioSystems

    General gene information

    Markers

    Homology

    Clone Names

    • MGC27814

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    RNA polymerase II CTD heptapeptide repeat phosphatase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    RNA polymerase II CTD heptapeptide repeat phosphatase activity ISO
    Inferred from Sequence Orthology
    more info
     
    hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
     
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    phosphoprotein phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
     
    protein serine/threonine phosphatase activity ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    dephosphorylation of RNA polymerase II C-terminal domain IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    dephosphorylation of RNA polymerase II C-terminal domain ISO
    Inferred from Sequence Orthology
    more info
     
    snRNA transcription ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    RNA polymerase II, holoenzyme ISO
    Inferred from Sequence Orthology
    more info
     
    cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    nucleolus 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
     

    General protein information

    Preferred Names
    putative RNA polymerase II subunit B1 CTD phosphatase Rpap2
    NP_001156933.1
    NP_001156934.1
    NP_001276498.1
    NP_001276499.1
    NP_659160.2
    XP_006534960.1
    XP_006534963.1
    XP_006534964.1
    XP_006534965.1
    XP_006534966.1
    XP_011247742.1

    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_001163461.2NP_001156933.1  putative RNA polymerase II subunit B1 CTD phosphatase Rpap2 isoform B

      See identical proteins and their annotated locations for NP_001156933.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks multiple 3' exons and contains an alternate 3' terminal exon, resulting in a different 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (B) has a shorter C-terminus than isoform A.
      Source sequence(s)
      AC117574, AK161901
      Consensus CDS
      CCDS51588.1
      UniProtKB/Swiss-Prot
      Q8VC34
      Related
      ENSMUSP00000108273.1, OTTMUSP00000027325, ENSMUST00000112654.7, OTTMUST00000056775
      Conserved Domains (1) summary
      pfam04181
      Location:81152
      RPAP2_Rtr1; Rtr1/RPAP2 family
    2. NM_001163462.2NP_001156934.1  putative RNA polymerase II subunit B1 CTD phosphatase Rpap2 isoform C

      See identical proteins and their annotated locations for NP_001156934.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in both the 5' and 3' coding regions and UTRs, compared to variant 1. The encoded isoform (C) has shorter N- and C- termini compared to isoform A.
      Source sequence(s)
      AC117574, AK049889
      Consensus CDS
      CCDS51589.1
      UniProtKB/Swiss-Prot
      Q8VC34
      Related
      ENSMUSP00000108269.1, OTTMUSP00000027326, ENSMUST00000112650.7, OTTMUST00000056776
      Conserved Domains (1) summary
      pfam04181
      Location:273
      RPAP2_Rtr1; Rtr1/RPAP2 family
    3. NM_001289569.1NP_001276498.1  putative RNA polymerase II subunit B1 CTD phosphatase Rpap2 isoform D

      See identical proteins and their annotated locations for NP_001276498.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) uses an alternate splice site in the 5' coding region and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (D) has a distinct N-terminus and is shorter than isoform A.
      Source sequence(s)
      AC117574, AK034418, AV221546
      Consensus CDS
      CCDS71631.1
      UniProtKB/Swiss-Prot
      Q8VC34
      Related
      ENSMUSP00000108270.1, OTTMUSP00000027324, ENSMUST00000112651.7, OTTMUST00000056774
      Conserved Domains (1) summary
      pfam04181
      Location:475
      RPAP2_Rtr1; Rtr1/RPAP2 family
    4. NM_001289570.1NP_001276499.1  putative RNA polymerase II subunit B1 CTD phosphatase Rpap2 isoform E

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) lacks multiple 3' exons and contains an alternate 3' terminal exon, resulting in a different 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (E) has a distinct C-terminus and is shorter than isoform A.
      Source sequence(s)
      AC117574, AK166574
      Consensus CDS
      CCDS71630.1
      UniProtKB/Swiss-Prot
      Q8VC34
      Related
      ENSMUSP00000108274.1, OTTMUSP00000027352, ENSMUST00000112655.7, OTTMUST00000056818
      Conserved Domains (1) summary
      pfam04181
      Location:81152
      RPAP2_Rtr1; Rtr1/RPAP2 family
    5. NM_001359916.1NP_001346845.1  putative RNA polymerase II subunit B1 CTD phosphatase Rpap2 isoform F

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (F) has a shorter and distinct N-terminus compared to isoform A.
      Source sequence(s)
      AC117574
      Conserved Domains (1) summary
      pfam04181
      Location:72143
      RPAP2_Rtr1; Rtr1/RPAP2 family
    6. NM_001359917.1NP_001346846.1  putative RNA polymerase II subunit B1 CTD phosphatase Rpap2 isoform G

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (G) is shorter at the N-terminus compared to isoform A. Variants 7 and 8 both encode the same isoform (G).
      Source sequence(s)
      AC117574
      Conserved Domains (1) summary
      pfam04181
      Location:273
      RPAP2_Rtr1; Rtr1/RPAP2 family
    7. NM_001359918.1NP_001346847.1  putative RNA polymerase II subunit B1 CTD phosphatase Rpap2 isoform G

      Status: VALIDATED

      Description
      Transcript Variant: This variant (8) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (G) is shorter at the N-terminus compared to isoform A. Variants 7 and 8 both encode the same isoform (G).
      Source sequence(s)
      AC117574
      Conserved Domains (1) summary
      pfam04181
      Location:273
      RPAP2_Rtr1; Rtr1/RPAP2 family
    8. NM_144911.3NP_659160.2  putative RNA polymerase II subunit B1 CTD phosphatase Rpap2 isoform A

      See identical proteins and their annotated locations for NP_659160.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (A).
      Source sequence(s)
      AC117574, AK034418, AK145830, AV221546
      Consensus CDS
      CCDS19506.1
      UniProtKB/Swiss-Prot
      Q8VC34
      Related
      ENSMUSP00000070209.5, OTTMUSP00000027351, ENSMUST00000065422.11, OTTMUST00000056817
      Conserved Domains (1) summary
      pfam04181
      Location:81152
      RPAP2_Rtr1; Rtr1/RPAP2 family

    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_000071.6 Reference GRCm38.p4 C57BL/6J

      Range
      107597373..107661853
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006534900.3XP_006534963.1  putative RNA polymerase II subunit B1 CTD phosphatase Rpap2 isoform X2

      See identical proteins and their annotated locations for XP_006534963.1

      UniProtKB/Swiss-Prot
      Q8VC34
      Conserved Domains (1) summary
      pfam04181
      Location:475
      RPAP2_Rtr1; Rtr1/RPAP2 family
    2. XM_011249440.2XP_011247742.1  putative RNA polymerase II subunit B1 CTD phosphatase Rpap2 isoform X3

      See identical proteins and their annotated locations for XP_011247742.1

      Conserved Domains (1) summary
      pfam04181
      Location:273
      RPAP2_Rtr1; Rtr1/RPAP2 family
    3. XM_006534901.3XP_006534964.1  putative RNA polymerase II subunit B1 CTD phosphatase Rpap2 isoform X3

      Conserved Domains (1) summary
      pfam04181
      Location:273
      RPAP2_Rtr1; Rtr1/RPAP2 family
    4. XM_006534903.3XP_006534966.1  putative RNA polymerase II subunit B1 CTD phosphatase Rpap2 isoform X3

      See identical proteins and their annotated locations for XP_006534966.1

      Conserved Domains (1) summary
      pfam04181
      Location:273
      RPAP2_Rtr1; Rtr1/RPAP2 family
    5. XM_006534897.2XP_006534960.1  putative RNA polymerase II subunit B1 CTD phosphatase Rpap2 isoform X1

      Conserved Domains (1) summary
      pfam04181
      Location:72143
      RPAP2_Rtr1; Rtr1/RPAP2 family
    6. XM_006534902.2XP_006534965.1  putative RNA polymerase II subunit B1 CTD phosphatase Rpap2 isoform X3

      Conserved Domains (1) summary
      pfam04181
      Location:273
      RPAP2_Rtr1; Rtr1/RPAP2 family
    Support Center