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Rpap1 RNA polymerase II associated protein 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 311338, updated on 5-Jun-2021

Summary

Symbol
Rpap1provided by RGD
Full Name
RNA polymerase II associated protein 1provided by RGD
Primary source
RGD:1590891
See related
Ensembl:ENSRNOG00000005483
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Expression
Biased expression in Spleen (RPKM 45.3), Kidney (RPKM 42.8) and 9 other tissues See more
Orthologs
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Genomic context

See Rpap1 in Genome Data Viewer
Location:
3q35
Exon count:
26
Annotation release Status Assembly Chr Location
108 current mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (106746642..106768182, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (111565646..111587184, complement)

Chromosome 3 - NC_051338.1Genomic Context describing neighboring genes Neighboring gene inositol-trisphosphate 3-kinase A Neighboring gene leukocyte receptor tyrosine kinase Neighboring gene TYRO3 protein tyrosine kinase Neighboring gene similar to gamma-aminobutyric acid receptor associated protein

Genomic regions, transcripts, and products

Expression

  • Project title: 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

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables DNA-directed 5'-3' RNA polymerase activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
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_001033999.2NP_001029171.1  RNA polymerase II-associated protein 1

    See identical proteins and their annotated locations for NP_001029171.1

    Status: PROVISIONAL

    Source sequence(s)
    BC101894, CB328668, CR475672
    UniProtKB/Swiss-Prot
    Q3T1I9
    Conserved Domains (2) summary
    pfam08620
    Location:364429
    RPAP1_C; RPAP1-like, C-terminal
    pfam08621
    Location:226270
    RPAP1_N; RPAP1-like, N-terminal

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 108 details...Open this link in a new tab

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

Reference mRatBN7.2 Primary Assembly

Genomic

  1. NC_051338.1 Reference mRatBN7.2 Primary Assembly

    Range
    106746642..106768182 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006234771.4XP_006234833.1  RNA polymerase II-associated protein 1 isoform X1

    See identical proteins and their annotated locations for XP_006234833.1

    UniProtKB/Swiss-Prot
    Q3T1I9
    Related
    ENSRNOP00000007299.3
    Conserved Domains (2) summary
    pfam08620
    Location:364429
    RPAP1_C; RPAP1-like, C-terminal
    pfam08621
    Location:226270
    RPAP1_N; RPAP1-like, N-terminal
  2. XM_039104940.1XP_038960868.1  RNA polymerase II-associated protein 1 isoform X2

    Conserved Domains (1) summary
    pfam08620
    Location:37102
    RPAP1_C; RPAP1-like, C-terminal
  3. XM_006234772.4XP_006234834.1  RNA polymerase II-associated protein 1 isoform X1

    See identical proteins and their annotated locations for XP_006234834.1

    UniProtKB/Swiss-Prot
    Q3T1I9
    Conserved Domains (2) summary
    pfam08620
    Location:364429
    RPAP1_C; RPAP1-like, C-terminal
    pfam08621
    Location:226270
    RPAP1_N; RPAP1-like, N-terminal
  4. XM_006234773.4XP_006234835.1  RNA polymerase II-associated protein 1 isoform X1

    See identical proteins and their annotated locations for XP_006234835.1

    UniProtKB/Swiss-Prot
    Q3T1I9
    Conserved Domains (2) summary
    pfam08620
    Location:364429
    RPAP1_C; RPAP1-like, C-terminal
    pfam08621
    Location:226270
    RPAP1_N; RPAP1-like, N-terminal
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