Yrdc yrdC N(6)-threonylcarbamoyltransferase domain containing [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Yrdcprovided by RGD
Official Full Name: yrdC N(6)-threonylcarbamoyltransferase domain containingprovided by RGD
Primary source: RGD:708492
See related: EnsemblRapid:ENSRNOG00000025424 AllianceGenome:RGD:708492
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: Isrip
Summary: Predicted to enable L-threonylcarbamoyladenylate synthase and tRNA binding activity. Predicted to be involved in regulation of translational fidelity and tRNA threonylcarbamoyladenosine modification. Predicted to act upstream of or within negative regulation of transport. Predicted to be located in membrane. Predicted to be active in mitochondrion. Human ortholog(s) of this gene implicated in Galloway-Mowat syndrome. Orthologous to human YRDC (yrdC N6-threonylcarbamoyltransferase domain containing). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Thymus (RPKM 114.4), Spleen (RPKM 92.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q36

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (142394833..142399798)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (137110244..137115127)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (142845265..142850110)

Chromosome 5 - NC_086023.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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 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 L-threonylcarbamoyladenylate synthase	IEA Inferred from Electronic Annotation more info
enables L-threonylcarbamoyladenylate synthase	ISO Inferred from Sequence Orthology more info
enables L-threonylcarbamoyladenylate synthase	ISS Inferred from Sequence or Structural Similarity more info
enables double-stranded RNA binding	IEA Inferred from Electronic Annotation more info
enables nucleotidyltransferase activity	IBA Inferred from Biological aspect of Ancestor more info
enables tRNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in negative regulation of transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of transport	ISO Inferred from Sequence Orthology more info
involved_in regulation of translational fidelity	IBA Inferred from Biological aspect of Ancestor more info
involved_in tRNA threonylcarbamoyladenosine modification	IEA Inferred from Electronic Annotation more info
involved_in tRNA threonylcarbamoyladenosine modification	ISO Inferred from Sequence Orthology more info
involved_in tRNA threonylcarbamoyladenosine modification	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
is_active_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in mitochondrion	IEA Inferred from Electronic Annotation more info
is_active_in mitochondrion	ISO Inferred from Sequence Orthology more info
is_active_in mitochondrion	ISS Inferred from Sequence or Structural Similarity more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: threonylcarbamoyl-AMP synthase

Names: BmTCTP receptor; ischemia/reperfusion inducible protein; ischemia/reperfusion-inducible protein homolog; yrdC domain containing; yrdC domain-containing protein, mitochondrial

NP_783194.2

EC 2.7.7.87

XP_038966075.1

EC 2.7.7.87

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_175604.2 → NP_783194.2 threonylcarbamoyl-AMP synthase precursor

See identical proteins and their annotated locations for NP_783194.2

Status: VALIDATED

Source sequence(s)

BC099797

UniProtKB/Swiss-Prot

Q499R4, Q5I0E4

UniProtKB/TrEMBL

A6IS57

Related

ENSRNOP00000105258.1, ENSRNOT00000139294.1

Conserved Domains (1) summary

pfam01300
Location:78 → 256

Sua5_yciO_yrdC; Telomere recombination

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_086023.1 Reference GRCr8

Range

142394833..142399798

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039110147.2 → XP_038966075.1 threonylcarbamoyl-AMP synthase isoform X1

UniProtKB/TrEMBL

A0A8L2QIR8

Related

ENSRNOP00000037600.4, ENSRNOT00000039870.6

Conserved Domains (1) summary

pfam01300
Location:78 → 209

Sua5_yciO_yrdC; Telomere recombination