Rag1 (recombination activating 1) - Rat Genome Database

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Gene: Rag1 (recombination activating 1) Chinchilla lanigera
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Symbol: Rag1
Name: recombination activating 1
RGD ID: 9063563
Description: ENCODES a protein that exhibits endonuclease activity (ortholog); histone binding (ortholog); identical protein binding (ortholog); INVOLVED IN adaptive immune response (ortholog); B cell differentiation (ortholog); negative regulation of T cell apoptotic process (ortholog); ASSOCIATED WITH adenosine deaminase deficiency (ortholog); Albuminuria (ortholog); Alpha/Beta T-Cell Lymphopenia with Gamma/Delta T-Cell Expansion, Severe Cytomegalovirus Infection, and Autoimmunity (ortholog); FOUND IN nucleus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: recombination activating gene 1; recombination activating protein 1; V(D)J recombination-activating protein 1
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554229,891,878 - 9,919,504 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554229,891,878 - 9,928,569 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Rag1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554229,891,878 - 9,919,504 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554229,891,878 - 9,928,569 (-)NCBIChiLan1.0ChiLan1.0
RAG1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381136,510,353 - 36,579,762 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1136,510,372 - 36,593,156 (+)EnsemblGRCh38hg38GRCh38
GRCh371136,531,903 - 36,601,312 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361136,546,139 - 36,557,851 (+)NCBINCBI36Build 36hg18NCBI36
Build 341136,546,138 - 36,557,871NCBI
Celera1136,741,994 - 36,753,743 (+)NCBICelera
Cytogenetic Map11p12NCBI
HuRef1136,292,349 - 36,304,098 (+)NCBIHuRef
CHM1_11136,588,249 - 36,599,998 (+)NCBICHM1_1
T2T-CHM13v2.01136,653,524 - 36,722,938 (+)NCBIT2T-CHM13v2.0
Rag1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392101,468,597 - 101,479,877 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2101,468,627 - 101,479,846 (-)EnsemblGRCm39 Ensembl
GRCm382101,638,252 - 101,649,532 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2101,638,282 - 101,649,501 (-)EnsemblGRCm38mm10GRCm38
MGSCv372101,478,409 - 101,489,689 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362101,439,121 - 101,450,340 (-)NCBIMGSCv36mm8
Celera2102,863,243 - 102,874,521 (-)NCBICelera
Cytogenetic Map2E2NCBI
cM Map253.88NCBI
Rag1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83108,372,087 - 108,383,184 (-)NCBIGRCr8
mRatBN7.2387,917,061 - 87,928,158 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl387,917,004 - 87,928,291 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx391,407,934 - 91,419,028 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03100,006,959 - 100,018,053 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0397,839,202 - 97,850,299 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0391,206,394 - 91,217,491 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl391,206,394 - 91,217,491 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0397,866,048 - 97,877,145 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4386,780,782 - 86,791,878 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1386,683,155 - 86,683,666 (-)NCBI
Celera387,023,254 - 87,034,352 (-)NCBICelera
Cytogenetic Map3q31NCBI
RAG1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2938,787,605 - 38,794,076 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11138,792,269 - 38,798,740 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01136,483,697 - 36,546,242 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11136,356,483 - 36,418,891 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1136,412,420 - 36,422,904 (+)Ensemblpanpan1.1panPan2
RAG1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11831,628,231 - 31,639,980 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1831,630,737 - 31,641,660 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1831,238,815 - 31,241,946 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01832,241,825 - 32,244,956 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1832,241,825 - 32,244,956 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11831,811,828 - 31,814,959 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01831,396,201 - 31,399,332 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01832,033,403 - 32,036,534 (-)NCBIUU_Cfam_GSD_1.0
Rag1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494728,691,865 - 28,695,927 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365331,817,135 - 1,827,393 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365331,817,135 - 1,827,393 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RAG1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl224,561,156 - 24,573,851 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1224,565,447 - 24,573,853 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2226,730,528 - 26,733,659 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RAG1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1128,667,996 - 28,701,002 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666038125,803,873 - 125,811,767 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rag1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476710,694,867 - 10,698,001 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476710,694,867 - 10,698,041 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


RefSeq Acc Id: ENSCLAT00000022830   ⟹   ENSCLAP00000022622
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554229,891,878 - 9,919,504 (-)Ensembl
RefSeq Acc Id: XM_005384104   ⟹   XP_005384161
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554229,891,878 - 9,900,902 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013514280   ⟹   XP_013369734
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554229,891,878 - 9,928,569 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005384161 (Get FASTA)   NCBI Sequence Viewer  
  XP_013369734 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AEP18785 (Get FASTA)   NCBI Sequence Viewer  
  AGW05221 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000022622
  ENSCLAP00000022622.1
RefSeq Acc Id: XP_005384161   ⟸   XM_005384104
- UniProtKB: A0A8C2W3N4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013369734   ⟸   XM_013514280
- UniProtKB: A0A8C2W3N4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCLAP00000022622   ⟸   ENSCLAT00000022830
Protein Domains
NBD   RAG1-type   RING-type


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000015510 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000022830 ENTREZGENE
  ENSCLAT00000022830.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 UniProtKB/TrEMBL
  6.10.140.510 UniProtKB/TrEMBL
  Classic Zinc Finger UniProtKB/TrEMBL
InterPro RAG1 UniProtKB/TrEMBL
  RAG1_imp-bd UniProtKB/TrEMBL
  RAG1_Znf UniProtKB/TrEMBL
  RAG_nonamer-bd_dom UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
  Znf_C3HC4_RING-type UniProtKB/TrEMBL
  Znf_RING UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
  Znf_RING_CS UniProtKB/TrEMBL
NCBI Gene Rag1 ENTREZGENE
PANTHER PTHR11539 UniProtKB/TrEMBL
  V(D)J RECOMBINATION-ACTIVATING PROTEIN 1 UniProtKB/TrEMBL
Pfam RAG1 UniProtKB/TrEMBL
  RAG1_imp_bd UniProtKB/TrEMBL
  zf-C3HC4 UniProtKB/TrEMBL
  zf-RAG1 UniProtKB/TrEMBL
PROSITE NBD UniProtKB/TrEMBL
  ZF_RAG1 UniProtKB/TrEMBL
  ZF_RING_1 UniProtKB/TrEMBL
  ZF_RING_2 UniProtKB/TrEMBL
SMART RING UniProtKB/TrEMBL
Superfamily-SCOP RING/U-box UniProtKB/TrEMBL
  SSF57667 UniProtKB/TrEMBL
UniProt A0A8C2W3N4 ENTREZGENE, UniProtKB/TrEMBL
  G5CYT1_CHILA UniProtKB/TrEMBL
  U3MCF0_CHILA UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-08-09 Rag1  recombination activating 1    recombination activating gene 1  Symbol and/or name change 5135510 APPROVED