rag2 recombination activating gene 2 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: rag2provided by ZNC
Official Full Name: recombination activating gene 2provided by ZNC
Primary source: ZFIN:ZDB-GENE-990415-235
See related: Ensembl:ENSDARG00000052121 AllianceGenome:ZFIN:ZDB-GENE-990415-235
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: rag-2; zgc:136743
Summary: Enables sequence-specific DNA binding activity. Contributes to double-stranded DNA endonuclease activity. Acts upstream of or within T cell differentiation; immune system development; and protein-DNA complex assembly. Part of DNA recombinase complex and endodeoxyribonuclease complex. Is expressed in immune system and pleuroperitoneal region. 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 RAG2 (recombination activating 2). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 25

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	25	NC_007136.7 (9010425..9013963, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	25	NC_007136.6 (8933357..8936895, complement)

Chromosome 25 - NC_007136.7 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

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The evolution of zebrafish RAG2 protein is required for adapting to the elevated body temperature of the higher endothermic vertebrates.
Title: The evolution of zebrafish RAG2 protein is required for adapting to the elevated body temperature of the higher endothermic vertebrates.
created rag2(E450fs) mutant zebrafish that have reduced numbers of functional T and B cells but are viable and fecund
Title: Optimized cell transplantation using adult rag2 mutant zebrafish.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables chromatin binding	ISS Inferred from Sequence or Structural Similarity more info
contributes_to double-stranded DNA endonuclease activity	IGI Inferred from Genetic Interaction more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables methylated histone binding	ISS Inferred from Sequence or Structural Similarity more info
enables phosphatidylinositol binding	ISS Inferred from Sequence or Structural Similarity more info
enables phosphatidylinositol-3,4,5-trisphosphate binding	ISS Inferred from Sequence or Structural Similarity more info
enables phosphatidylinositol-3,4-bisphosphate binding	ISS Inferred from Sequence or Structural Similarity more info
enables phosphatidylinositol-3,5-bisphosphate binding	ISS Inferred from Sequence or Structural Similarity more info
enables phosphatidylinositol-4,5-bisphosphate binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables sequence-specific DNA binding	IPI Inferred from Physical Interaction more info	PubMed
enables zinc ion binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in B cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within DNA recombination	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within T cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in T cell differentiation in thymus	ISS Inferred from Sequence or Structural Similarity 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	IPI Inferred from Physical Interaction more info	PubMed
involved_in V(D)J recombination	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within chromatin organization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within hematopoietic or lymphoid organ development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within immunoglobulin V(D)J recombination	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within lymphocyte differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within protein-DNA complex assembly	IPI Inferred from Physical Interaction more info	PubMed
acts_upstream_of_or_within thymus development	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 DNA recombinase complex	IPI Inferred from Physical Interaction more info	PubMed
part_of endodeoxyribonuclease complex	IPI Inferred from Physical Interaction more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: V(D)J recombination-activating protein 2

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_131385.3 → NP_571460.2 V(D)J recombination-activating protein 2

See identical proteins and their annotated locations for NP_571460.2

Status: VALIDATED

Source sequence(s)

AL935203

UniProtKB/Swiss-Prot

O13034

UniProtKB/TrEMBL

A0A8M1PBA9, Q1RLW7

Related

ENSDARP00000068402.5, ENSDART00000073912.6

Conserved Domains (3) summary

pfam03089
Location:51 → 386

RAG2; Recombination activating protein 2

pfam13341
Location:414 → 492

RAG2_PHD; RAG2 PHD domain

pfam13415
Location:91 → 145

Kelch_3; Galactose oxidase, central domain