RNA id: XM_026921439.2


Basic Information

Item Value
RNA id XM_026921439.2
length 3716
RNA type mRNA
GC content 0.48
exon number 9
gene id rarga
representative True

Chromosome Information

Item Value
chromosome id NC_047610.1
NCBI id CM018556.1
chromosome length 25111544
location 20232088 ~ 20268787 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

ATTATTTCTCACCGAGAGCCACAGGGAGTGTGTGCCTgtggaaagagagggaggaagaaacgaaagggaaggagggagggagagggaaagaaagaaaagacagaaatgagTTGGTGAGTTGGTTTGTGCTCTGCCTCTGCAGCTAAAGGGACCCGGACGGACGAAGAGCGCACTCGCTTCCTCTCCTCACGCACTCTGTCTCCTCCTTCATCCTGGGTGAAGCTGGGAAAGTTTCTACAACGGCTGGAACTGGACACAAGTGGGTCCTCCGGCTCTGAGTAACTGGAGTGCTGAGTACGCCAGGTGAAGTACTGTTAACTCTCCATCACCCTGGCTGCTTGGCCGGGATCACAgggccagccaatcagagcctCGGCCTGCGGTGTCGCCATGGCCACCAATCGTAGTCACATGCCCGGCTTCCCACCCGCTGTCTACCCGTTTGCCTTCAACTCCATGCGGAGCCACTCCCCCTTTGACCTGATGGCCAATGGCAGTCTGTTTGGCCGCTTCGGGGCGGACCTTCCCAAAGAGATGGCGGCCTTGTCGGTGGAGACTCAGAGCACCAGTTCAGAGGAGATGGTACCCAGTTCGCCCTCTCCACCCCCACCACCTCGTGTCTACAAGCCGTGCTTTGTGTGCCAGGATAAGTCGTCGGGCTACCACTACGGCGTCAGCTCCTGTGAGGGCTGTAAGGGCTTCTTTCGGCGCAGCATCCAGAAGAACATGGTGTACACCTGCCACCGCGACAAGAACTGCCAGATCAACAAGGTCACACGCAACCGCTGCCAGTACTGCCGCCTGCAGAAGTGCTTTGAGGTCGGCATGTCCAAGGAAGCTGTGCGGAATGACcgaaataagaagaagaaggacgTGAAGGAGGAAATTGTGCCGGTTGAGAGCTACGAGCTGAGTGGTGAACTGGAGGAATTGGTGAACAAAGTGAGCAAAGCACACCAAGAGACCTGCCCTTCATTGTGCCAGCTGGGAAAATACACCACAAACTCCAGCTCAGATCACCGCGTTCAGTTGGATCTTGGATTGTGGGATAAGTTCAGTGAACTTTCCACCAAGTGCATCATCAAGATCGTGGAGTTTGCCAAGCGCCTCCCTGGCTTCACATCTCTCACCATTGCCGACCAGATAACCCTGCTCAAATCAGCCTGCCTGGACATTCTGATGCTGCGGATCTGTACACGCTACACACCTGAGCAGGATACAATGACGTTCTCAGACGGACTCACTCTGAACCGCACTCAGATGCACAATGCAGGTTTTGGTCCACTAACTGATCTGGTCTTTGCCTTTGCTGGGCAACTTTTACCGCTGGAGATGGACGACACCGAAACAGGCCTCCTCAGTGCCATCTGTCTCATCTGTGGAGACCGTATGGACCTAGAAGAGCCCCAGCGTGTAGATCGTCTACAGGAGCCCTTGCTGGAGGCGCTGAAAATCTACGCCCGCCGCCGCCGGCCCAACAAACCCCACATGTTCCCACGGATGCTGATGAAGATCACAGACCTGCGTGGCATCAGCACCAAAGGAGCAGAGAGGGCGGTCACGCTGAAGATGGAGATCCCGGGCCCAATGCCACCTCTGATCCGGGAAATGCTGGAGAATCCAGAGGCATTTGAAGAGCAGCCGGAGTGCAGCGAGAGCAAAGCCGAGCcagttcctcctcctcctccaacaGTTCCCCCGTTCACCATGAAGACAGAGcgtgaggatgaggaagagagCTGGGCCACTGAGAACGGAAGCGAGCCATCACCAGAAGAGGAAGACGATGAAGACGAAGATGCCGAGGAGGAGAGGGGAACGGACAGTGACGGAGAGGCCTGGCCTGGTCAGGAACCTAATGTGGACATGTCCAGAAAGAGCCATGGTGGAAGGGCCCAGTGAGCAGGCTTCTTCTCTGTAAACGCACACCTACACCTCATACCAACACCTATACCCCTCTTTCCCCTCGGTTACCCTGCTCTCACAGCAATCTGCCCCTGCAGGGGTAAACATAGAGCCTTAAATCCGTACAGCCAACCCTAACTCAGGCCTCGTGGTCAGCAAtgagacacacatgcacaatgtgTGAAGACTTGAGATGGACGGCTCTTCTCAGGAACTCTGCAAAAAGGGCAAGAGGGAAGACGCGAGACAAAACAAATGACTGTACAGTTACTTTTTTATACTATCATGTTTGTATTAAAGATAATGGAGCAGCCATACAGAAAGACACAACATAAAACAGTCAACAGTCAATAGGTTCAACAAAAACTGCAaggtgaaacaaacaaacaaatcagctGATAATTTTTTGGATGCATTTGATTACAGTTTTGACTTTTTCAACCTCTTTACTTTTTATGAATATGCCCATACATATCTATATAcctttatatttttgtctttgtatACTATTTCTTCAGTTATACATTGTTTGGATAGCTTTCCTAAGGAGAGTTGGAGATGATCTAATAATTATAACTGGCAGACGTCTACTGAGTCTTTACCCAGACGTTCGGCTGGGTTCTCAAGCACTTGGCTCATTGTAGACGTCGACCCTAATCAGTTCACTAGGTCGTCTCTTCCTTGACTTCTGCTAGTTGATCAGTGTTTTAAGGACTGGGATTACTGATATGAATTCTGGTTGCTTAAGCTGCAGTACCTTCCTGCCAACTGAATGGTGTTTTTGTGCCAAAGCATGCAGTTTATAATGTGGCAAAGAGTTTGTCAGCTGTCAGTGATCCCCTCTAAAGCCAAACTCTAAAGAGTGCACTTGATTCATACATAAGGCAGGCTCTACAGTATATGCTAAACGTTCAGAATGATCACCTCCTTAATGTTCTTTTGAGACATGGATTCCAGAAGAAAGCTTTGCTAagattttcatacacacatgAATCTTATATAATCGCGTTATCCCCACATATTGAAAGCACATCCAGCATGCCAACAGAACTCTTtctatgtataaaaataaaacggAAACTCCGACTCAGGGCATTTCGGTGAGGACCAAACGCTAGCTGCCTGCAGGCATGCTGCAAAAACAGcaatatttatgtgtgtgtagtattgAATATGTTTGCTCAGTTTAGATGTCTTACTTGGAAGTGGTGACATCTACAGACCTTAGTAAAGCCATTGTAAAACTTTTATATGCTCtcttttattatagaaatggtcatttttgtaatatactgccaaaaaaaaaaaaaaaaacagcatgcaaTTAGGTGACCGTGTGTAATGTGCCACTTTTACAGTTATGCAATACAGAAAaccagttgtgtgtgtttgtctctgggATTGTGAGGTCTGTTGAGCATAGATTTGGAATGATGAATGTCATTTGTGTGGTGCTAAAACACTGAGAATGTGAATGTGCACCCACtcttctcttacacacacacatgcacacacacacaacacataagcACCATCGCCTGTCTCTTGTGCACACTCATGTCTGTCCTATTTGTTCAGaaacacatgcgcacacacacaaatctctcCTGGCACCTTGTGGCGTGTAGCACCTCCTGTAACACATTGCTACGTTGCAAACCGAATGTTGACATTatgttgtcttgtttttgctcattttcatgtcCTCAATTTGGCTGAGGCATTCTTGATTCCCTGTTCATGTTCAAGCAGCTCTGTTATATAAAGAAAAGCCATATAAGCATTCAGAGGCAATAAATGACTGATTGCAA

Function

GO:

id name namespace
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0043401 steroid hormone mediated signaling pathway biological_process
GO:0048384 retinoic acid receptor signaling pathway biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003707 steroid hormone receptor activity molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG:

id description
K08529 RARG, NR1B3; retinoic acid receptor gamma

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU305179 lncRNA upstream 122862 20108390 ~ 20109226 (+) False G257803
TU305180 lncRNA upstream 122862 20108390 ~ 20109226 (+) True G257803
TU305178 lncRNA upstream 128048 20101008 ~ 20104040 (+) True G257802
TU305196 lncRNA upstream 132590 20099230 ~ 20099498 (+) True G257814
TU305195 lncRNA upstream 166080 20065477 ~ 20066008 (+) True G257813
TU305574 lncRNA downstream 101208 20369995 ~ 20386813 (+) True G258097
TU305577 lncRNA downstream 101208 20369995 ~ 20379334 (+) False G258097
TU305640 lncRNA downstream 299003 20567790 ~ 20576789 (+) True G258156
TU305646 lncRNA downstream 342754 20611541 ~ 20657067 (+) True G258162
TU305792 lncRNA downstream 394895 20663682 ~ 20680938 (+) True G258273
XM_026921229.2 mRNA upstream 33436 20183237 ~ 20198652 (+) True gdap1l1
XM_034311546.1 mRNA upstream 76992 20148652 ~ 20155096 (+) False LOC113530927
XM_026921335.2 mRNA upstream 76992 20152246 ~ 20155096 (+) True LOC113530927
XM_034311545.1 mRNA upstream 81683 20147178 ~ 20150405 (+) False LOC113530927
XM_026921333.2 mRNA upstream 81683 20148652 ~ 20150405 (+) False LOC113530927
XM_026920340.2 mRNA downstream 68184 20336971 ~ 20340547 (+) True hoxc13a
XM_026920252.2 mRNA downstream 78372 20347159 ~ 20350929 (+) True hoxc12a
XM_026920335.2 mRNA downstream 89385 20358172 ~ 20361279 (+) True hoxc11a
XM_026920557.2 mRNA downstream 97670 20366457 ~ 20370016 (+) True hoxc10a
XM_034311738.1 mRNA downstream 101309 20370096 ~ 20386828 (+) True hoxc8a
TU304946 other upstream 753193 19478302 ~ 19478895 (+) True G257622
trnae-cuc_34 other upstream 1199100 19032917 ~ 19032988 (+) True trnae-cuc_34
TU304341 other upstream 1320374 18879568 ~ 18911714 (+) False fmnl3
XR_004579712.1 other upstream 3111147 17071136 ~ 17120941 (+) False itga5
TU303060 other upstream 3723708 16508025 ~ 16508380 (+) True G256046
TU305571 other downstream 122022 20390809 ~ 20398714 (+) True G258096
XR_003403172.2 other downstream 241457 20510244 ~ 20514195 (+) False LOC113530729
XR_004579743.1 other downstream 634318 20903105 ~ 20907250 (+) False ubxn10
TU305940 other downstream 634360 20903147 ~ 20905073 (+) False ubxn10
TU306101 other downstream 959533 21228320 ~ 21230871 (+) False si:ch73-290k24.5

Expression Profile