Rag1 recombination activating 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Rag1provided by RGD
Official Full Name: recombination activating 1provided by RGD
Primary source: RGD:619790
See related: Ensembl:ENSRNOG00000004630 AllianceGenome:RGD:619790
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
Summary: Predicted to enable several functions, including protein homodimerization activity; ubiquitin protein ligase activity; and zinc ion binding activity. Predicted to contribute to double-stranded DNA endodeoxyribonuclease activity. Involved in regulation of behavioral fear response and visual learning. Predicted to be part of DNA recombinase complex and endodeoxyribonuclease complex. Predicted to be active in nucleus. Used to study hypertension and severe combined immunodeficiency. Human ortholog(s) of this gene implicated in Omenn syndrome; combined cellular and humoral immune defects with granulomas; severe combined immunodeficiency; and severe combined immunodeficiency, autosomal recessive, T cell-negative, B cell-negative, Nk cell-positive. Orthologous to human RAG1 (recombination activating 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Restricted expression toward (RPKM 4241.6) See more
Orthologs: human mouse all
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Genomic context

Location:: 3q31

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (108372087..108383184, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (87917061..87928158, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (91206394..91217491, complement)

Chromosome 3 - NC_086021.1 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
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?

Rag1-null Dahl SS rats provide evidence that adaptive immune mechanisms contribute to the exacerbation of salt-induced hypertension and renal injury mediated by increased dietary protein intake.
Title: Rag1-null Dahl SS rats reveal that adaptive immune mechanisms exacerbate high protein-induced hypertension and renal injury.
The infiltration of T cells into the kidney following high-salt intake was significantly blunted in the Rag1-null rats
Title: Genetic mutation of recombination activating gene 1 in Dahl salt-sensitive rats attenuates hypertension and renal damage.
knockdown of Rag1 expression in the hippocampus may impair spatial learning and memory ability in rats
Title: Contribution of Rag1 to spatial memory ability in rats.
High expression of RAG1 is closely related to the pathogenesis of allergic rhinitis.
Title: [The expression and DNA sequence of recombination activating gene-1 in nasal membrane of allergic rhinitis].

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
contributes_to double-stranded DNA endonuclease activity	IBA Inferred from Biological aspect of Ancestor more info
enables endonuclease activity	ISO Inferred from Sequence Orthology more info
enables histone binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	ISO Inferred from Sequence Orthology more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables ubiquitin protein ligase activity	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin protein ligase activity	ISO Inferred from Sequence Orthology more info
enables ubiquitin-protein transferase activity	ISO Inferred from Sequence Orthology more info
enables zinc ion binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within B cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in B cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within T cell differentiation in thymus	ISO Inferred from Sequence Orthology more info
involved_in T cell differentiation in thymus	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within T cell homeostasis	ISO Inferred from Sequence Orthology more info
involved_in V(D)J recombination	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within V(D)J recombination	ISO Inferred from Sequence Orthology more info
involved_in V(D)J recombination	ISO Inferred from Sequence Orthology more info
involved_in adaptive immune response	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within adaptive immune response	ISO Inferred from Sequence Orthology more info
involved_in chromatin organization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of T cell apoptotic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of thymocyte apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of T cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in pre-B cell allelic exclusion	IBA Inferred from Biological aspect of Ancestor more info
involved_in pre-B cell allelic exclusion	ISO Inferred from Sequence Orthology more info
involved_in protein autoubiquitination	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of T cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in regulation of behavioral fear response	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within thymus development	ISO Inferred from Sequence Orthology more info
involved_in visual learning	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of DNA recombinase complex	IBA Inferred from Biological aspect of Ancestor more info
part_of endodeoxyribonuclease complex	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: V(D)J recombination-activating protein 1

Names: recombination activating gene 1; recombination activation protein 1; recombination-activating protein 1

NP_445920.1

EC 2.3.2.27

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_053468.2 → NP_445920.1 V(D)J recombination-activating protein 1

See identical proteins and their annotated locations for NP_445920.1

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000003

UniProtKB/TrEMBL

A6HNM3, G3V6K9

Related

ENSRNOP00000006115.3, ENSRNOT00000006115.6

Conserved Domains (4) summary

pfam00097
Location:290 → 328

zf-C3HC4; Zinc finger, C3HC4 type (RING finger)

pfam10426
Location:351 → 380

zf-RAG1; Recombination-activating protein 1 zinc-finger domain

pfam12560
Location:11 → 288

RAG1_imp_bd; RAG1 importin binding

pfam12940
Location:386 → 1024

RAG1; Recombination-activation protein 1 (RAG1)