Pus1 pseudouridine synthase 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Pus1provided by RGD
Official Full Name: pseudouridine synthase 1provided by RGD
Primary source: RGD:1311871
See related: Ensembl:ENSRNOG00000037500 AllianceGenome:RGD:1311871
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
Summary: Predicted to enable several functions, including RNA binding activity; nuclear receptor coactivator activity; and tRNA pseudouridine synthase activity. Predicted to be involved in mRNA pseudouridine synthesis and tRNA pseudouridine synthesis. Predicted to act upstream of or within positive regulation of transcription by RNA polymerase II. Predicted to be located in mitochondrion; nucleolus; and nucleoplasm. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in myopathy, lactic acidosis, and sideroblastic anemia 1. Orthologous to human PUS1 (pseudouridine synthase 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Adrenal (RPKM 87.4), Spleen (RPKM 76.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 12q16

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	12	NC_086030.1 (51539659..51548975)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	12	NC_051347.1 (45880364..45889196)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	12	NC_005111.4 (51936721..51945930)

Chromosome 12 - NC_086030.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

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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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables nuclear receptor coactivator activity	ISO Inferred from Sequence Orthology more info
enables pseudouridine synthase activity	IBA Inferred from Biological aspect of Ancestor more info
enables pseudouridine synthase activity	IEA Inferred from Electronic Annotation more info
enables pseudouridine synthase activity	ISO Inferred from Sequence Orthology more info
enables pseudouridine synthase activity	ISS Inferred from Sequence or Structural Similarity more info
enables steroid receptor RNA activator RNA binding	ISO Inferred from Sequence Orthology more info
enables steroid receptor RNA activator RNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables tRNA binding	ISO Inferred from Sequence Orthology more info
enables tRNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables tRNA pseudouridine synthase activity	ISO Inferred from Sequence Orthology more info
enables tRNA pseudouridine(38-40) synthase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in RNA splicing	IEA Inferred from Electronic Annotation more info
involved_in mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in mRNA pseudouridine synthesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in mRNA pseudouridine synthesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in tRNA pseudouridine synthesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in tRNA pseudouridine synthesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within tRNA pseudouridine synthesis	ISO Inferred from Sequence Orthology more info
involved_in tRNA pseudouridine synthesis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in intracellular membrane-bounded organelle	IEA Inferred from Electronic Annotation more info
located_in mitochondrion	ISO Inferred from Sequence Orthology more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of transcription regulator complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: pseudouridylate synthase 1 homolog

Names: pseudouridylate synthase 1; tRNA pseudouridine synthase 1; tRNA pseudouridine synthase A, mitochondrial; tRNA pseudouridine(38-40) synthase; tRNA pseudouridylate synthase I; tRNA-uridine isomerase I

NP_001020734.1

EC 5.4.99.12

XP_006249609.1

EC 5.4.99.12

XP_017453841.1

EC 5.4.99.12

XP_063127435.1

EC 5.4.99.12

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_001025563.2 → NP_001020734.1 pseudouridylate synthase 1 homolog

See identical proteins and their annotated locations for NP_001020734.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000012

UniProtKB/Swiss-Prot

Q4KM92

UniProtKB/TrEMBL

A0A8I6A863, A6J292, B1WBN5

Related

ENSRNOP00000053623.1, ENSRNOT00000056780.2

Conserved Domains (1) summary

cd02568
Location:84 → 336

PseudoU_synth_PUS1_PUS2; Pseudouridine synthase, PUS1/ PUS2 like

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_086030.1 Reference GRCr8

Range

51539659..51548975

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006249547.5 → XP_006249609.1 pseudouridylate synthase 1 homolog isoform X1

See identical proteins and their annotated locations for XP_006249609.1

UniProtKB/TrEMBL

A0A8I6A863, A6J292, A6J293

Conserved Domains (2) summary

cd02568
Location:54 → 306

PseudoU_synth_PUS1_PUS2; Pseudouridine synthase, PUS1/ PUS2 like

COG0101
Location:50 → 329

TruA; tRNA U38,U39,U40 pseudouridine synthase TruA [Translation, ribosomal structure and biogenesis]
XM_063271365.1 → XP_063127435.1 pseudouridylate synthase 1 homolog isoform X3

UniProtKB/TrEMBL

A0A8I6A863, A0A8I6ANT6, A6J292
XM_017598352.3 → XP_017453841.1 pseudouridylate synthase 1 homolog isoform X2

UniProtKB/TrEMBL

A0A8I6A863, A6J292

Related

ENSRNOP00000090656.1