RNA id: XM_022672161.1


Basic Information

Item Value
RNA id XM_022672161.1
length 4811
RNA type mRNA
GC content 0.47
exon number 6
gene id rag1
representative True

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
species mexican tetra
(Astyanax mexicanus)

Sequence

agacacacacacacacacacacacacctcctccgtCTTGGTGCTCCCATGCAGAAAGGACCCCAGGGGACACTGCACCAGCTGAGCCTCAAAAACAAGAAGCCGAGACTGCGCTGATACAATGGAGACAGAAGAGCCCAGCATTCCGAGGGATGGGCCGAGAGCCTCCATGCCGGATGAACTGTGCCATCCCTATTCCAAGTTCTCCGACTGGAAGTTTAAGCTCTTCCGGGTGCGCTCCATGGAGAAGGCACCGCTGCCCAGTGAACCTCCCTTGGAGAAAGAAGCGAAGCCGAGGCTTCAGGCAGAGGGGGATGCGGTGGGCCTTCCCGGCAGCGTCATGAAGATCTGTCTGGGGGGCAAGAGCAAGGAAAGTGTGGAGGGGGTCCGCAGGCGGGTGGATCTCAAGCTTCAGGAGATCGACACACACATGGACCATCTCAGGTCTTTATGTCGCTTATGTGGCATAATTCTGAGGAAAGCCAAAGGCCCAGAGCATGAGGTCCAAGCAAATCTAGACGAGTCCAAGTGTGCCCTGCGGAGAATGGGCTGCAAGGCTGCAAGTTGGCCTGAGGTCATCCTGAAGGTCTTTAAAGTAGACGTGAGTGGAGACTTGGAAACCATCCACCCCTCAATGTTCTGTCACCGATGCTGGAGTGTAGCCATGAGAGGAGGGGGTTTCTGTAGTTTCTCCAGGACTCGGGTCCCTGTGTGGAAGCCTCATACCTCGCACTGCCTGCTCTGCTTCCCCAAGAGACTCATACTTCAGCGAAGGGGAAGGAAGAGAAGCAAACcactacacagcacacactGCCTGCCTAAGAGGACCAAAAGGGACTGTTCTGCACCCACAGGGGGCAACAGAGTATGGAGACAGACCACAGACAACCCTGAAGCTTTTGCTTTGAGGGCATGGGTGAAGCCAGCTGCTCAGAGAGCCCTGTGGGTAAAGAATATAACTCGCTGCCAGAAAGACCACCTAAGCTGCCAGCTTCTCCCCGGAGAACTCCCAAAAGACTTTGTGAACGGTGTCACCTGCCAGGTGTGTGAGCACCTACTCTCTGACCCCGTCCAGTCCCCGTGCCTTCACCTCTTTTGTCGCACCTGCATCCAGAAATACAGCCAGTCTCTTGGTCCCCAGTGTCCAACCTGTGGGCTCCTTTTTAACCCATGTGACCTCGCTAACCCTGCTAAAGCCTTTCTCTTAGTTCTCAACTCACTGCCTTTGGCCTGCCCCAGGGAAGGCTGTGGGGAGTGGGTCAGATTAGACACCTTTGCAGACCACTGCCTAAATCACTGCCTTGAGACCAATGACACTGAAGAACAGGACAGTCCGGAGCAGAATCTGGACGGCTACCTGCCCGTCAACAAGGGCGGCCGTCCTCGCCAGCACCTTCTCTCACTTACACGAAGAGCGCAGAAGCACAGGCTGAGAGAGCTGAAGAACCAGGTGAAGGTGTTTGCTGACAAGGAAGAGGGCGGAGACGTGAAGGCTGTGTGTTTGACGCTGTTCCTGTTGGCACTGAGGGCCGGGAATGAACACAAGCAGGCTGATGAGCTGGAGGCCATGATGCAAGGCAGGGGGCTTGGCCTGCACCCTGCGGTGTGTCTGGCCATACGGGTCAACACCTTCCTCAGCTGCAGCCAGTACCACAAGATGTACCGCACCGTCAAGGCCACTAGTGGACGCCAGATATTCCAGCCCCTGCACACCCTCCGTACTGCAGAGAAGGAGCTTCTCCCTGGCTTCCATCAGTTTGAGTGGCAGCCAGCTCTCAAAAATGTGTCCAGCTCTTGGAACATAGGCATCATAGATGGGCTCTCTGGCTGGACGGTGTCTGTAGAGGACGTGCCAGCAGACACCATCTCTAGACGATTCCGCTATGATGTTGCGCTGGTATCAGCTTTGAAAGACCTGGAGGAGGACATCATGGAgggtctgagagagagaggtttggATGACAGCACCTGCACGTCAGGTTTCACTGTGGTAATCAAGGAGTCGTGTGATGGCATGGGGGATGTCAGCGAAAAGCACGGAGGTGGACCGGCTGTTCCTGAGAAGGCTGTGAGATTCTCTTTTACAGTGATGTCCATCACCATTCAAGCGGAAGGTGAGGAAGAAGCAGTCACGATATTCCAGGAGCAAAAGCCCAACTCAGAACTGTCCTGCCGACCACTGTGCCTCATGTTTGTGGACGAGTCCGATCATGAGATGCTGACCGCCATCCTGGGTCCTGTAGTGGCAGAGCGTAGAGCGATGAAGGAGAGTCGCCTCATCCTTTCCATAGGTGGGCTCCTTCGCTCCTTCCGCTTCTTCTTCCGAGGCACAGGCTATGACGAGAAGATGGTGCGAGAAATGGAAGGGCTGGAGGCTTCAGGATCCACTTACGTCTGCACCTTGTGTGACTCAACACGAGCTGAAGCCTCTCAAAACATGGTGCTGCATTCTATCACTCGAAGCCATGAGGAAAACCTTGAGAGATATGAGATTTGGAGAACCAACCCTTTCTCAGAGACTGCAGATGAACTGCGGGATCGAGTCAAAGGGGTCTCCGCTAAGCCTTTCATGGAGACGCAGCCCACGCTAGATGCCTTGCACTGTGACATTGGCAATGCTACAGAATTCTACAAGATATTCCAGGATGAGATTGGTGAAATGTACCAGAAAGTCAACCCCGCTCGAGAGGAGAGACGGCGCTGGCGATCAGCTCTTGACAAGCAGttgaggatgaagatgaagctgAAGCCGGTGATGAGGATGAACGGGAACTATGCCCGGAGGTTGATGACCAGTGAGGCTGTGGAGGTGGTGTGTGAGCTGGTTCCTTCAGAGGAGCGCCGCAAGGCTCTGAGAGAGCTGATGGAGTTGTACCTCCAGATGAAGCCGGTCTGGCGCTCTACCTGCCCAGCCAGAGACTGCCCTGATCAACTCTGCCGTTATAGCTTCAACTCACAACGCTTTGCTGAACTCTTGTCCAGTACGTTCAAATACCGCTACGATGGCAAGATTACCAACTACCTCCACAAGACTCTGGCCCATGTGCCTGAGATTGTGGAGCGGGATGGCTCGATTGGTGCCTGGGCCAGTGAGGGAAATGAGTCTGGCAACAAGCTCTTCCGACGCTTCCGTAAGATGAACGCCAGGCAGTCCAAAACATTTGAGTTGGAGGACATACTAAAGCACCATTGGCTATATACCTCAAAGTACCTGCAGAAGTTCATGGAGGCTCACAAGGATTCAGCAAAAGCACTGCAAGCCACCATCAACCCAGTGGAAACCCCAGATGACCTTGATATGGCTGACCTTCCAgatttttgaaaagaaaaaaatcttcagGGTTGTGTGgatcatttaactcaaatacacttggacatttattttctttactttatttcattggAGACTTGATATGTCactttattaaataactgacattttctttttttagataaGCTCTAAAACCAAGTTGAATCACTTTTTTGACtatcttttatcattttttttatattgttgctTTTACAGTCAGAATAATTGTTATACGACAGAGAATAAGATTAGGAAGAAATGGCTATTCTTTCTTTTCAGGGTTTGCAGGCAAATTTTTGTATTTCATCCTTGGCTGCTGGTGAAATATGGGATAGTTTATTGTATTACTGGGTTATGACACATTCATGAATTTATACAGAAGGATTATTTATGGAAGCAGATGAAAGCACCGTAAGTCACAGAAGGGGGAATTGCTTTAAAAGAGCCCCGTTTATGATCGCTGTATTAATTTATCACTGAGGGCAGAGACAAAATGGAATTAGGAAAACTCAACCCGCCTCAGTTTCAGAAGAGTTAGTGAAAAGGATTACTTTAGTGTCATATATCAGGGACCTCCTGAAGAATAGCAGCATCGCTAAAATGACTTTGAACGACCCCATACTGCATATTTACACGTTTGCACATTCCAGCAGACATGCTATTATTCTACCTCCATTTTTAAATCACCTCAGTATTTTGCACCCCACTGAACACTCAGCATTAACGCAGGAGGCACAGTCAGAATCAATGCATTAGTCCGTGCATTCACATTACTGTAGCACAAGCATTCTTTTATCATCTTTTAATGATGTtgcttgttttgttctttgtctgattgattggttgattggatatgcttttctttatttactgtgCATATCTGATTAACTACTTTCATCAAATTATTATGCAACATTTTGCAATATTAGGTTTATTGATTAATGTACTTTAAGGATTTACTTAGTTTATTtacttgattgattgattggttacTTGATTACTTGATTGATGACATAGTTTTGATGTATAGAATGATGTACTTTACTTAATTCACTGGTTGTATTATTTTGATGCCCAGCACAAATGTAACGAAACATTGTaaactgattttattatttttatgaaaatgcagtttattgtaagttttggtctttttttgtgtttttggtaaTATGGTGATTACAACATACATTTGGATGTGGTTAGACTAAAGACTCTtaagactattttttttacagcttttgcCCTAGGGCATCAGCTATTTTACTATTGTGACTACTGTATGtcacctttttaatttttttgtagtttCATAGTTTTAAAGATGCACAAGGTATATTCAGTTGCAATTTCATTATGATTTGTTGATTTGCACACAAGTACTGTTCTCTACCCAGTTTTATTTCTTATGAGAGCGTAAATGTGACTGCTTACCCTATTCATTTTGTTCAGCGTTGGTTATGTGTTTCAATAACtttctttactttaaaagatGTTCAACA

Function

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

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU98736 lncRNA upstream 258104 12674986 ~ 12676348 (+) True G73191
TU98733 lncRNA upstream 264723 12663967 ~ 12669729 (+) True G73189
TU98715 lncRNA upstream 292630 12639245 ~ 12641822 (+) True G73177
TU98665 lncRNA upstream 369660 12564133 ~ 12564792 (+) True G73146
TU98768 lncRNA downstream 4684 12947646 ~ 12952320 (+) False G73214
TU98771 lncRNA downstream 4684 12947646 ~ 12952320 (+) True G73214
TU98772 lncRNA downstream 4684 12947646 ~ 12952320 (+) False G73214
TU98857 lncRNA downstream 154779 13097741 ~ 13098590 (+) True G73288
TU98861 lncRNA downstream 214807 13157769 ~ 13158679 (+) True G73292
XM_007228140.3 mRNA upstream 25391 12897785 ~ 12909061 (+) False LOC103044030
XM_022672160.1 mRNA upstream 25391 12900385 ~ 12909061 (+) False LOC103044030
XM_007228139.3 mRNA upstream 25391 12901430 ~ 12909061 (+) True LOC103044030
XM_007228138.3 mRNA upstream 37989 12871484 ~ 12896463 (+) True LOC103043719
XM_022672154.1 mRNA upstream 218794 12680111 ~ 12715658 (+) False man2a2
XM_007228150.3 mRNA downstream 719847 13662809 ~ 13676841 (+) False ehf
XM_022672162.1 mRNA downstream 726660 13669622 ~ 13677076 (+) True ehf
XM_022672163.1 mRNA downstream 726660 13669622 ~ 13676841 (+) False ehf
XM_007228153.3 mRNA downstream 751466 13694428 ~ 13765050 (+) True pdhx
XM_022671916.1 mRNA downstream 851451 13794413 ~ 13828422 (+) True cd44
XR_002650241.1 other upstream 36521 12871484 ~ 12897931 (+) False LOC103043719
trnar-ucg_4 other upstream 331028 12603352 ~ 12603424 (+) True trnar-ucg_4
TU97933 other upstream 2852312 10078579 ~ 10082140 (+) True G72621
TU97487 other upstream 3785033 9142899 ~ 9149419 (+) True G72281
TU96877 other upstream 6048911 6881587 ~ 6885541 (+) True G71788
TU99159 other downstream 1705867 14648829 ~ 14649551 (+) True G73533
XR_002650242.1 other downstream 1948572 14891534 ~ 14921003 (+) False rpgrip1l
TU99974 other downstream 3343714 16286676 ~ 16288329 (+) True G74169
TU100573 other downstream 5511889 18454851 ~ 18455197 (+) True G74649
TU100801 other downstream 6139854 19082816 ~ 19085556 (+) True G74832

Expression Profile