Rtf1 Rtf1, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae) [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Rtf1provided by RGD
Official Full Name: Rtf1, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae)provided by RGD
Primary source: RGD:1310654
See related: Ensembl:ENSRNOG00000005183 AllianceGenome:RGD:1310654
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Gtl7
Summary: Predicted to enable RNA polymerase II C-terminal domain phosphoserine binding activity and single-stranded DNA binding activity. Predicted to be involved in several processes, including histone H3-K4 trimethylation; positive regulation of histone H3-K4 methylation; and transcription elongation from RNA polymerase II promoter. Predicted to act upstream of or within blastocyst growth. Predicted to be located in nucleolus. Predicted to be part of Cdc73/Paf1 complex. Orthologous to human RTF1 (RTF1 homolog, Paf1/RNA polymerase II complex component). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Spleen (RPKM 54.2), Adrenal (RPKM 53.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q35

Exon count:: 18

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (127113171..127172761)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (106659363..106718956)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (111478350..111537941)

Chromosome 3 - NC_086021.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

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

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Markers

RH136804 (e-PCR)
- UniSTS:218893

RH129118 (e-PCR)
- UniSTS:212426

RH128102 (e-PCR)
- UniSTS:211410

RH140876 (e-PCR)
- UniSTS:211410

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA polymerase II C-terminal domain phosphoserine binding	IBA Inferred from Biological aspect of Ancestor more info
enables single-stranded DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
acts_upstream_of_or_within blastocyst growth	ISO Inferred from Sequence Orthology more info
involved_in chromatin organization	ISO Inferred from Sequence Orthology more info
involved_in endodermal cell fate commitment	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in stem cell population maintenance	ISO Inferred from Sequence Orthology more info
involved_in transcription elongation by RNA polymerase II	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
part_of Cdc73/Paf1 complex	ISO Inferred from Sequence Orthology more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: RNA polymerase-associated protein RTF1 homolog

Names: 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)

NM_001401979.1 → NP_001388908.1 RNA polymerase-associated protein RTF1 homolog precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/TrEMBL

A0A8I6AGX2

Related

ENSRNOP00000094041.1, ENSRNOT00000105159.1

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086021.1 Reference GRCr8

Range

127113171..127172761

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063284277.1 → XP_063140347.1 RNA polymerase-associated protein RTF1 homolog isoform X1

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001108958.1: Suppressed sequence

Description

NM_001108958.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.