rag1 (rag1,LOC107750737,LOC107670202)


Basic Information

Item Value
gene id rag1
gene name rag1,LOC107750737,LOC107670202
gene type coding
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_035904.1
NCBI id CM008307.1
chromosome length 27092187
location 12934452 ~ 12942962 (+)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>XM_022672161.1
agacacacacacacacacacacacacctcctccgtCTTGGTGCTCCCATGCAGAAAGGACCCCAGGGGACACTGCACCAGCTGAGCCTCAAAAACAAGAAGCCGAGACTGCGCTGATACAATGGAGACAGAAGAGCCCAGCATTCCGAGGGATGGGCCGAGAGCCTCCATGCCGGATGAACTGTGCCATCCCTATTCCAAGTTCTCCGACTGGAAGTTTAAGCTCTTCCGGGTGCGCTCCATGGAGAAGGCACCGCTGCCCAGTGAACCTCCCTTGGAGAAAGAAGCGAAGCCGAGGCTTCAGGCAGAGGGGGATGCGGTGGGCCTTCCCGGCAGCGTCATGAAGATCTGTCTGGGGGGCAAGAGCAAGGAAAGTGTGGAGGGGGTCCGCAGGCGGGTGGATCTCAAGCTTCAGGAGATCGACACACACATGGACCATCTCAGGTCTTTATGTCGCTTATGTGGCATAATTCTGAGGAAAGCCAAAGGCCCAGAGCATGAGGTCCAAGCAAATCTAGACGAGTCCAAGTGTGCCCTGCGGAGAATGGGCTGCAAGGCTGCAAGTTGGCCTGAGGTCATCCTGAAGGTCTTTAAAGTAGACGTGAGTGGAGACTTGGAAACCATCCACCCCTCAATGTTCTGTCACCGATGCTGGAGTGTAGCCATGAGAGGAGGGGGTTTCTGTAGTTTCTCCAGGACTCGGGTCCCTGTGTGGAAGCCTCATACCTCGCACTGCCTGCTCTGCTTCCCCAAGAGACTCATACTTCAGCGAAGGGGAAGGAAGAGAAGCAAACcactacacagcacacactGCCTGCCTAAGAGGACCAAAAGGGACTGTTCTGCACCCACAGGGGGCAACAGAGTATGGAGACAGACCACAGACAACCCTGAAGCTTTTGCTTTGAGGGCATGGGTGAAGCCAGCTGCTCAGAGAGCCCTGTGGGTAAAGAATATAACTCGCTGCCAGAAAGACCACCTAAGCTGCCAGCTTCTCCCCGGAGAACTCCCAAAAGACTTTGTGAACGGTGTCACCTGCCAGGTGTGTGAGCACCTACTCTCTGACCCCGTCCAGTCCCCGTGCCTTCACCTCTTTTGTCGCACCTGCATCCAGAAATACAGCCAGTCTCTTGGTCCCCAGTGTCCAACCTGTGGGCTCCTTTTTAACCCATGTGACCTCGCTAACCCTGCTAAAGCCTTTCTCTTAGTTCTCAACTCACTGCCTTTGGCCTGCCCCAGGGAAGGCTGTGGGGAGTGGGTCAGATTAGACACCTTTGCAGACCACTGCCTAAATCACTGCCTTGAGACCAATGACACTGAAGAACAGGACAGTCCGGAGCAGAATCTGGACGGCTACCTGCCCGTCAACAAGGGCGGCCGTCCTCGCCAGCACCTTCTCTCACTTACACGAAGAGCGCAGAAGCACAGGCTGAGAGAGCTGAAGAACCAGGTGAAGGTGTTTGCTGACAAGGAAGAGGGCGGAGACGTGAAGGCTGTGTGTTTGACGCTGTTCCTGTTGGCACTGAGGGCCGGGAATGAACACAAGCAGGCTGATGAGCTGGAGGCCATGATGCAAGGCAGGGGGCTTGGCCTGCACCCTGCGGTGTGTCTGGCCATACGGGTCAACACCTTCCTCAGCTGCAGCCAGTACCACAAGATGTACCGCACCGTCAAGGCCACTAGTGGACGCCAGATATTCCAGCCCCTGCACACCCTCCGTACTGCAGAGAAGGAGCTTCTCCCTGGCTTCCATCAGTTTGAGTGGCAGCCAGCTCTCAAAAATGTGTCCAGCTCTTGGAACATAGGCATCATAGATGGGCTCTCTGGCTGGACGGTGTCTGTAGAGGACGTGCCAGCAGACACCATCTCTAGACGATTCCGCTATGATGTTGCGCTGGTATCAGCTTTGAAAGACCTGGAGGAGGACATCATGGAgggtctgagagagagaggtttggATGACAGCACCTGCACGTCAGGTTTCACTGTGGTAATCAAGGAGTCGTGTGATGGCATGGGGGATGTCAGCGAAAAGCACGGAGGTGGACCGGCTGTTCCTGAGAAGGCTGTGAGATTCTCTTTTACAGTGATGTCCATCACCATTCAAGCGGAAGGTGAGGAAGAAGCAGTCACGATATTCCAGGAGCAAAAGCCCAACTCAGAACTGTCCTGCCGACCACTGTGCCTCATGTTTGTGGACGAGTCCGATCATGAGATGCTGACCGCCATCCTGGGTCCTGTAGTGGCAGAGCGTAGAGCGATGAAGGAGAGTCGCCTCATCCTTTCCATAGGTGGGCTCCTTCGCTCCTTCCGCTTCTTCTTCCGAGGCACAGGCTATGACGAGAAGATGGTGCGAGAAATGGAAGGGCTGGAGGCTTCAGGATCCACTTACGTCTGCACCTTGTGTGACTCAACACGAGCTGAAGCCTCTCAAAACATGGTGCTGCATTCTATCACTCGAAGCCATGAGGAAAACCTTGAGAGATATGAGATTTGGAGAACCAACCCTTTCTCAGAGACTGCAGATGAACTGCGGGATCGAGTCAAAGGGGTCTCCGCTAAGCCTTTCATGGAGACGCAGCCCACGCTAGATGCCTTGCACTGTGACATTGGCAATGCTACAGAATTCTACAAGATATTCCAGGATGAGATTGGTGAAATGTACCAGAAAGTCAACCCCGCTCGAGAGGAGAGACGGCGCTGGCGATCAGCTCTTGACAAGCAGttgaggatgaagatgaagctgAAGCCGGTGATGAGGATGAACGGGAACTATGCCCGGAGGTTGATGACCAGTGAGGCTGTGGAGGTGGTGTGTGAGCTGGTTCCTTCAGAGGAGCGCCGCAAGGCTCTGAGAGAGCTGATGGAGTTGTACCTCCAGATGAAGCCGGTCTGGCGCTCTACCTGCCCAGCCAGAGACTGCCCTGATCAACTCTGCCGTTATAGCTTCAACTCACAACGCTTTGCTGAACTCTTGTCCAGTACGTTCAAATACCGCTACGATGGCAAGATTACCAACTACCTCCACAAGACTCTGGCCCATGTGCCTGAGATTGTGGAGCGGGATGGCTCGATTGGTGCCTGGGCCAGTGAGGGAAATGAGTCTGGCAACAAGCTCTTCCGACGCTTCCGTAAGATGAACGCCAGGCAGTCCAAAACATTTGAGTTGGAGGACATACTAAAGCACCATTGGCTATATACCTCAAAGTACCTGCAGAAGTTCATGGAGGCTCACAAGGATTCAGCAAAAGCACTGCAAGCCACCATCAACCCAGTGGAAACCCCAGATGACCTTGATATGGCTGACCTTCCAgatttttgaaaagaaaaaaatcttcagGGTTGTGTGgatcatttaactcaaatacacttggacatttattttctttactttatttcattggAGACTTGATATGTCactttattaaataactgacattttctttttttagataaGCTCTAAAACCAAGTTGAATCACTTTTTTGACtatcttttatcattttttttatattgttgctTTTACAGTCAGAATAATTGTTATACGACAGAGAATAAGATTAGGAAGAAATGGCTATTCTTTCTTTTCAGGGTTTGCAGGCAAATTTTTGTATTTCATCCTTGGCTGCTGGTGAAATATGGGATAGTTTATTGTATTACTGGGTTATGACACATTCATGAATTTATACAGAAGGATTATTTATGGAAGCAGATGAAAGCACCGTAAGTCACAGAAGGGGGAATTGCTTTAAAAGAGCCCCGTTTATGATCGCTGTATTAATTTATCACTGAGGGCAGAGACAAAATGGAATTAGGAAAACTCAACCCGCCTCAGTTTCAGAAGAGTTAGTGAAAAGGATTACTTTAGTGTCATATATCAGGGACCTCCTGAAGAATAGCAGCATCGCTAAAATGACTTTGAACGACCCCATACTGCATATTTACACGTTTGCACATTCCAGCAGACATGCTATTATTCTACCTCCATTTTTAAATCACCTCAGTATTTTGCACCCCACTGAACACTCAGCATTAACGCAGGAGGCACAGTCAGAATCAATGCATTAGTCCGTGCATTCACATTACTGTAGCACAAGCATTCTTTTATCATCTTTTAATGATGTtgcttgttttgttctttgtctgattgattggttgattggatatgcttttctttatttactgtgCATATCTGATTAACTACTTTCATCAAATTATTATGCAACATTTTGCAATATTAGGTTTATTGATTAATGTACTTTAAGGATTTACTTAGTTTATTtacttgattgattgattggttacTTGATTACTTGATTGATGACATAGTTTTGATGTATAGAATGATGTACTTTACTTAATTCACTGGTTGTATTATTTTGATGCCCAGCACAAATGTAACGAAACATTGTaaactgattttattatttttatgaaaatgcagtttattgtaagttttggtctttttttgtgtttttggtaaTATGGTGATTACAACATACATTTGGATGTGGTTAGACTAAAGACTCTtaagactattttttttacagcttttgcCCTAGGGCATCAGCTATTTTACTATTGTGACTACTGTATGtcacctttttaatttttttgtagtttCATAGTTTTAAAGATGCACAAGGTATATTCAGTTGCAATTTCATTATGATTTGTTGATTTGCACACAAGTACTGTTCTCTACCCAGTTTTATTTCTTATGAGAGCGTAAATGTGACTGCTTACCCTATTCATTTTGTTCAGCGTTGGTTATGTGTTTCAATAACtttctttactttaaaagatGTTCAACA

Function

symbol description
rag1 Enables magnesium ion binding activity and sequence-specific DNA binding activity. Contributes to double-stranded DNA endodeoxyribonuclease activity. Acts upstream of or within V(D)J recombination and protein-DNA complex assembly. Part of DNA recombinase complex and endodeoxyribonuclease complex. Is expressed in gonad; hematopoietic cell; hypophysis; immune system; and ventral wall of dorsal aorta. 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).

NR:

description
V(D)J recombination-activating protein 1

GO:

id name namespace
GO:0033151 V(D)J recombination biological_process
GO:0010390 histone monoubiquitination biological_process
GO:0090305 nucleic acid phosphodiester bond hydrolysis biological_process
GO:0030183 B cell differentiation biological_process
GO:0033077 T cell differentiation in thymus biological_process
GO:0005634 nucleus cellular_component
GO:0042393 histone binding molecular_function
GO:0043565 sequence-specific DNA binding molecular_function
GO:0004519 endonuclease activity molecular_function
GO:0004842 ubiquitin-protein transferase activity molecular_function
GO:0042803 protein homodimerization activity molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG:

id description
K10628 RAG1; V(D)J recombination-activating protein 1

RNA

RNA id representative length rna type GC content exon number start site end site
XM_022672161.1 True 4811 mRNA 0.47 6 12934452 12942962

Neighbor

gene id symbol gene type direction distance location
LOC103044030 LOC103044030,LOC108428802,LOC108428756 coding upstream 25391 12897785 ~ 12909061 (+)
man2a2 man2a2,LOC107750719,LOC107720774,LOC107670215 coding upstream 218794 12680106 ~ 12715658 (+)
trnar-ucg_4 NA coding upstream 331028 12603352 ~ 12603424 (+)
fanci fanci,LOC107673243,LOC107670230,LOC107564606 coding upstream 346909 12568837 ~ 12587543 (+)
LOC103039298 NA coding upstream 386774 12490584 ~ 12547678 (+)
ehf ehf coding downstream 719847 13662809 ~ 13677076 (+)
pdhx pdhx coding downstream 751466 13694428 ~ 13765050 (+)
cd44 LOC106561308,LOC106573350 coding downstream 851451 13794413 ~ 13828422 (+)
fjx1 NA coding downstream 1065670 14008632 ~ 14011720 (+)
trim44 trim44,LOC107716865 coding downstream 1135050 14078012 ~ 14161299 (+)
G73191 NA non-coding upstream 258104 12674986 ~ 12676348 (+)
G73189 unc45a non-coding upstream 264723 12663967 ~ 12669729 (+)
G73177 NA non-coding upstream 292630 12639245 ~ 12641822 (+)
G73146 fbxo31 non-coding upstream 369660 12564133 ~ 12564792 (+)
G73091 NA non-coding upstream 376600 12557634 ~ 12557852 (+)
G73214 NA non-coding downstream 4684 12947646 ~ 12952320 (+)
G73288 NA non-coding downstream 154779 13097741 ~ 13098590 (+)
G73292 NA non-coding downstream 214807 13157769 ~ 13158679 (+)
G73298 NA non-coding downstream 282709 13225671 ~ 13225955 (+)
G73301 NA non-coding downstream 294998 13237960 ~ 13238212 (+)
LOC103043719 NA other upstream 36521 12871484 ~ 12897931 (+)
LOC103022150 brsk2a,brsk2b,LOC107707552,LOC107675281,LOC107600443 other upstream 2307488 10272919 ~ 10626964 (+)
G72621 NA other upstream 2852312 10078579 ~ 10082140 (+)
LOC103043718 LOC103043718,LOC108442465 other upstream 2964410 9968506 ~ 9970042 (+)
G72281 LOC107754548,LOC108274935,LOC107754545,LOC107754498 other upstream 3785033 9142899 ~ 9149419 (+)
G73533 NA other downstream 1705867 14648829 ~ 14649551 (+)
rpgrip1l rpgrip1l other downstream 1948572 14891534 ~ 14921003 (+)
svip svip other downstream 2629340 15572302 ~ 15577533 (+)
G74169 NA other downstream 3343714 16286676 ~ 16288329 (+)
G74649 NA other downstream 5511889 18454851 ~ 18455197 (+)

Expression


Co-expression Network