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Rpap1 RNA polymerase II associated protein 1 [ Mus musculus (house mouse) ]

Gene ID: 68925, updated on 5-Mar-2024

Summary

Official Symbol
Rpap1provided by MGI
Official Full Name
RNA polymerase II associated protein 1provided by MGI
Primary source
MGI:MGI:1916175
See related
Ensembl:ENSMUSG00000034032 AllianceGenome:MGI:1916175
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
mKIAA1403; 1190005L06Rik; A730023M06Rik
Summary
Predicted to enable DNA binding activity and DNA-directed 5'-3' RNA polymerase activity. Predicted to be involved in transcription by RNA polymerase II. Predicted to be located in nucleus. Predicted to be part of RNA polymerase complex. Is expressed in embryo. Orthologous to human RPAP1 (RNA polymerase II associated protein 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in ovary adult (RPKM 23.1), thymus adult (RPKM 18.8) and 28 other tissues See more
Orthologs
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Genomic context

See Rpap1 in Genome Data Viewer
Location:
2 E5; 2 59.97 cM
Exon count:
26
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (119594440..119618018, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (119763959..119787537, complement)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene inositol 1,4,5-trisphosphate 3-kinase A Neighboring gene leukocyte tyrosine kinase Neighboring gene STARR-seq mESC enhancer starr_05495 Neighboring gene predicted gene, 23814 Neighboring gene TYRO3 protein tyrosine kinase 3

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • MGC144180, MGC144181

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables nucleotidyltransferase activity IEA
Inferred from Electronic Annotation
more info
 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
part_of DNA-directed RNA polymerase complex IEA
Inferred from Electronic Annotation
more info
 
part_of RNA polymerase complex ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
RNA polymerase II-associated protein 1

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_001163701.1NP_001157173.1  RNA polymerase II-associated protein 1 isoform 2

    See identical proteins and their annotated locations for NP_001157173.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AK167589, AL844896, BB843404, BC088899, D19398
    Consensus CDS
    CCDS16610.1
    UniProtKB/Swiss-Prot
    A2AQ24, Q148U0, Q148U1, Q3TJ48, Q3TLZ5, Q3TTA6, Q80TE0, Q80UT8, Q91VM0
    Related
    ENSMUSP00000037275.6, ENSMUST00000048493.12
    Conserved Domains (2) summary
    pfam08620
    Location:372437
    RPAP1_C; RPAP1-like, C-terminal
    pfam08621
    Location:225270
    RPAP1_N; RPAP1-like, N-terminal
  2. NM_177294.5NP_796268.3  RNA polymerase II-associated protein 1 isoform 1

    See identical proteins and their annotated locations for NP_796268.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AK167589, AL844896, BB843404, BC088899, D19398
    Consensus CDS
    CCDS16610.1
    UniProtKB/Swiss-Prot
    A2AQ24, Q148U0, Q148U1, Q3TJ48, Q3TLZ5, Q3TTA6, Q80TE0, Q80UT8, Q91VM0
    Related
    ENSMUSP00000097127.3, ENSMUST00000099529.9
    Conserved Domains (2) summary
    pfam08620
    Location:372437
    RPAP1_C; RPAP1-like, C-terminal
    pfam08621
    Location:225270
    RPAP1_N; RPAP1-like, N-terminal

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000068.8 Reference GRCm39 C57BL/6J

    Range
    119594440..119618018 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006500121.3XP_006500184.1  RNA polymerase II-associated protein 1 isoform X1

    See identical proteins and their annotated locations for XP_006500184.1

    UniProtKB/Swiss-Prot
    A2AQ24, Q148U0, Q148U1, Q3TJ48, Q3TLZ5, Q3TTA6, Q80TE0, Q80UT8, Q91VM0
    Conserved Domains (2) summary
    pfam08620
    Location:372437
    RPAP1_C; RPAP1-like, C-terminal
    pfam08621
    Location:225270
    RPAP1_N; RPAP1-like, N-terminal
  2. XM_036162532.1XP_036018425.1  RNA polymerase II-associated protein 1 isoform X2

    Conserved Domains (2) summary
    pfam08620
    Location:135200
    RPAP1_C; RPAP1-like, C-terminal
    pfam08621
    Location:133
    RPAP1_N; RPAP1-like, N-terminal
  3. XM_011239759.2XP_011238061.1  RNA polymerase II-associated protein 1 isoform X1

    See identical proteins and their annotated locations for XP_011238061.1

    UniProtKB/Swiss-Prot
    A2AQ24, Q148U0, Q148U1, Q3TJ48, Q3TLZ5, Q3TTA6, Q80TE0, Q80UT8, Q91VM0
    Related
    ENSMUSP00000106420.2, ENSMUST00000110793.8
    Conserved Domains (2) summary
    pfam08620
    Location:372437
    RPAP1_C; RPAP1-like, C-terminal
    pfam08621
    Location:225270
    RPAP1_N; RPAP1-like, N-terminal

RNA

  1. XR_001783174.1 RNA Sequence

    Related
    ENSMUST00000136419.8