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Rtf1 RTF1, Paf1/RNA polymerase II complex component [ Mus musculus (house mouse) ]

Gene ID: 76246, updated on 16-Oct-2021

Summary

Official Symbol
Rtf1provided by MGI
Official Full Name
RTF1, Paf1/RNA polymerase II complex componentprovided by MGI
Primary source
MGI:MGI:1309480
See related
Ensembl:ENSMUSG00000027304
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
Gtl7; cbp82; AI853581; AU043144; AW553985; 2900005O08Rik; 6530416A09Rik
Expression
Ubiquitous expression in CNS E11.5 (RPKM 14.6), CNS E14 (RPKM 12.6) and 28 other tissues See more
Orthologs
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Genomic context

See Rtf1 in Genome Data Viewer
Location:
2; 2 E5
Exon count:
19
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (119505549..119565888)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (119675068..119735407)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 2 NC_000068.6 (119500804..119561143)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene NADH:ubiquinone oxidoreductase complex assembly factor 1 Neighboring gene H3 histone, family 3C Neighboring gene predicted gene, 25857 Neighboring gene inositol 1,4,5-trisphosphate 3-kinase A

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 PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables RNA polymerase II C-terminal domain phosphoserine binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
contributes_to protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables single-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
part_of Cdc73/Paf1 complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of Cdc73/Paf1 complex IPI
Inferred from Physical Interaction
more info
PubMed 
part_of Cdc73/Paf1 complex ISO
Inferred from Sequence Orthology
more info
 
located_in nucleolus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
RNA polymerase-associated protein RTF1 homolog
Names
Rtf1, Paf1/RNA polymerase II complex component, homolog
gene trap locus 7

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_030112.2NP_084388.2  RNA polymerase-associated protein RTF1 homolog precursor

    See identical proteins and their annotated locations for NP_084388.2

    Status: VALIDATED

    Source sequence(s)
    AK019305, AL844536, AW491091, BC117849, BY270385, CN532066, CN839001
    Consensus CDS
    CCDS50673.1
    UniProtKB/Swiss-Prot
    A2AQ19
    UniProtKB/TrEMBL
    Q9CTY6
    Related
    ENSMUSP00000028767.9, ENSMUST00000028767.9
    Conserved Domains (2) summary
    COG5296
    Location:194628
    COG5296; Transcription factor involved in TATA site selection and in elongation by RNA polymerase II [Transcription]
    pfam03126
    Location:364462
    Plus-3; Plus-3 domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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
    119505549..119565888
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036162668.1XP_036018561.1  RNA polymerase-associated protein RTF1 homolog isoform X3

    Conserved Domains (2) summary
    COG5296
    Location:148413
    COG5296; Transcription factor involved in TATA site selection and in elongation by RNA polymerase II [Transcription]
    pfam03126
    Location:149249
    Plus-3; Plus-3 domain
  2. XM_036162666.1XP_036018559.1  RNA polymerase-associated protein RTF1 homolog isoform X1

    Conserved Domains (2) summary
    COG5296
    Location:154588
    COG5296; Transcription factor involved in TATA site selection and in elongation by RNA polymerase II [Transcription]
    pfam03126
    Location:324424
    Plus-3; Plus-3 domain
  3. XM_036162667.1XP_036018560.1  RNA polymerase-associated protein RTF1 homolog isoform X2

    Conserved Domains (2) summary
    COG5296
    Location:3437
    COG5296; Transcription factor involved in TATA site selection and in elongation by RNA polymerase II [Transcription]
    pfam03126
    Location:173273
    Plus-3; Plus-3 domain
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