RNA id: XM_026916683.2


Basic Information

Item Value
RNA id XM_026916683.2
length 4681
RNA type mRNA
GC content 0.51
exon number 18
gene id rfx1a
representative False

Chromosome Information

Item Value
chromosome id NC_047607.1
NCBI id CM018553.1
chromosome length 26458119
location 11830043 ~ 11850336 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

GAGCTGTAGACAAGACTGACAGCTTCTCTGGACCAATAAGTGAGACACTACTTCAGCGTCGTGGAGCCATTTGGACCTATCAGTGATGACAAAGGGGGCGGGATGTGAGCGGGTGGGTAGCAACAGTTGCCCGGGTGAGGACGAAGCGCCATAGCCACGGTAGTCCTGGCGACAAGAGCCCAGCAACAAGAATCAACAACAACAGCCCGATTCATTGAAACGCTAAAAATCAAACATAGCGGTGGAAAAATCACTCGGATTAAAAgCGTTTCAGCCAGGCGATCTCGATGGCGACTCCAGCCTATGTCGGGGAGCTGCAGCAGACCTCCCAGCCTCCAGCGGGCGCTGTAACCGTAACACCGGGCCAGCCTGTCGTTGTCACGACCGCGGCGCCTCAGCAGTACCTGTCGGAGCTGCAAAATACCGTGACCTCTGTCTCAGCATCGGCAACCTCCGGCCAGGTCACTCCCCCTCCTGCGCAGACCCCGCCCACACAGGCCCCGCCCACACAGACTCAGTATGTCCCAGCTGAGATGCAGAATTCACCCACGCAGTCCGGCAATGCCCAAAACACGCCGCAGTACATCGTGGTTACGGTTACAGAGGGCTCCATCCATTCCAGCGACTCGGTTTCAGATTCCAGCCCCCcacctgcagtggtacagaccGGAGTTCCCACTcaggtggtgcagcaggtgcAGTCAGCCcagcagAGGTCTGTGGTCCAAGCCACATCTCAGCCTACCAAGACTGAACAGGGCACACAATTGAGCGTCACCAGCCTACAGCCTGTACACTTGACTCAGGAGcagctgcagcaggtACCCGTGCAGCATGTGTACACTAACCAGGTGCAGTACGTGGAGGGAGGAGACACAAGCTACACTACCAGCACCATACGTTCCGGCAGTTTTGTGTACACCGACAGTCCCTTGTACACTCAGACCAGTGGTGCTCAGTATTATGAAAGCACCAGTGTCAGTGTCTCTGCCTCCCAGGCTGCCTCTCCTGTAAATACAGGCTTTGTGACAGGGACAGGGCAAATTGTGACCAGTGCCACGCCTGGCACAGGGGGTGGAGCCACAGCAGTAATCGCAGTGTCAGGGACGGCCACTAACGGCTCTGGGGATGGAGGAGGCGGGGCTAACGGGAGCAGTGGCAGCTACGTGATTCAGGGAGGCTACATGCTCAGCAGTGGTGGAggcaccagcagcagcagcagtggaaaCGGCCAGAGTTACTCACAAAATGCTCGCGTCTCCCCGGCCACCGTGAGTATTAGCGAGGGAGAGGAGAATAGCGTGCCGTCTGCAGACAAAAAGCTGTCCTCTGGCCCTCAGGTGCAGTGGTTGTTGGATAATTATGAGACGGCGGAGGGTGTGAGCCTGCCGCGCTCCACGCTCTACTGCCACTACCTGCTGCACTGCCAGGAGCAGAAGCTGGAGCCCGTCAACGCTGCCTCCTTCGGAAAACTCATCCGCTCCGTCTTCATGGGCCTGAGGACGAGGCGCCTGGGAACTCGaGGGAACTCAAAATATCACTACTATGGGCTGAGGATTAAAGCTAGCTCCTCTCTGCTCCGGCTAATGGAGGACCAACAACACCTGGCAATGAGGCAGCAGCCCTTCTCCCAAAAACAGAGGTTGAAGCCAGTACAGAAGATGGAAGGAATGACCAACGGGATGTCGTCAGGGGCGggacaacagcagcagcaacagacTTCAGGGCtttctgacatcagtgcccagGTGCAGCAGTACCAACAATTCCTGGaTGCATCCCGTGCTCTCCCAGAGTTCCCTGAAATTGACTTGCAGGGCAAACCTTTGCCAGAGGGCATTGAGCTGGAACACATTAAGAGCTTTCAGCTACTCTACAGAGAGCACTGCGAGGCCATCCTGGACGTCATGGTGAACCTGCAGTTCACACTGGTGGAGACACTGTGGAAAACGTTCTGGAGGTTTAGCGAGAGCCAGGCAGGAGACACGGCCACGCTGGCTGTtcATGATGAGTCAGAGAAGCGGCTGCCTAAGTCATGCCTGGTGCTGCTTTGCAAGTATGAGCCAGCGCTGCGTTGGAGCCGTGACTGTGACAACACACTGTACCAGGGCCTGGTGGAGATCCTCATCCCAGACGTACTGAGACCCATACCCAGTGCCTTAACTCAAGCCATCCGAAACTTTGCCAAGAGTCTGGAGAGCTGGCTGACTAACGCCATGATGAACATTCCCGAGGAGATGGTCCGCATCAAAGTGACATGTGCGAATGCATTTGCACAGACGCTGCGCAGGTACACCTCTCTGAACCACCTGGCCCAGGCTGCTCGTGCTGTGCTGCAGAACACTGCGCAGATCAACCAGATGCTCAGCGACCTCAACCGAGTCGACTTTGCAAACGTGCAGGAGCAGGCCTCTTGGGTGTGTCGGTGTGAGGACCGTGTGGTGCAGCGGTTAGAGCAGGACTTTAAGCTCACCCTGCAGCAGCAGAACTCACTGGAGCAGTGGGCTGCCTGGCTGGATGGTGTCGTCTCCCAGGTCCTAAAGCCCTACCAGGCCAGCCCGGCCTTCCCCAAAGCTGCTAAACTCTTTCTGCTCAGATGGAGCTTCTACAGTTCTATGGTAATCAGAGATCTGACACTGCGCAGTGCAGCCAGTTTTGGCTCCTTTCATCTCATCCGCCTGCTGTATGATGAGTACATGTATTACCTAATAGAGCACAGAGTGGCCCAGGCCAAAGGGGAGACCCCTATCGCTGTCATGGGAGagTTTGCAAGCCTTGGTCGCAGTCTTAACACACTGGATCCTGATAAAGaagaggaggatgaggaggaagaggagagtgaTGATGAGTGTCAGGAATTGGCTCTGCCTGCTGACGGAGCCGCTCTTGGCGAGGAGTCTCTGGAGCCGCCTGCTAAGCTCGCCCGAACCGACCAGAGAGTGCTCTTCAGCAACACAGAGAACTGAGAACGCACAttccaccaccacacacacacacacatacacacacacacacactttgttatGTAAACATAGTGATTACATGCTGCAGTTCACATAACTCTATTCACATATACTtactcacacatatacactgaaacacacacaaacaaacacacacacacacacacacacacacctttaaagaaatacttaatgttttttaaaccaATCTTTATCGACTAAATCtgtagcttgtgtgtgtttaccacaGTCCTTGGCACATTTccttgtactgagaaaagaagagatACTTTACTTGTTTACTTGCTTATAAAGGAAGTCTCAGGGCAGGAAAAATTCATGACGTTGTATATGCATTTATCAACTGCCCCATAAACTACCCTTAGACCTCAAATATAAGTGGGTTTTAAGTTGTTTATGTTCTTTTATCAGTACAGCAAAACATGCCAAAATGTAATCACACGTACGCTACAGATGTGTAGATATCTGACTGAAAAACTCTGGAGTATTCCTCCTGGAGTAAGACACAATCGCTGGCACGATTTTAATGTTACAGGGGCATGATAGAGAGATGTATTTTACTGATagtaaacaaacacacttcagtctgaaaaggtgtgtgtcagtcagtccAACGACCTGCAAACACAGCGGAGATGAGTTTTCTTTGCACCTTCATGCTGGCACTGCGTCTGCCCCACAGAGCTGTGTCAAAGAGAACAGCAAAAGCATGAACAATGAGACACTGGAAATATGTTTGTGGACATACTGGAGCCACTGAGCCACGTGAGCTTCTGTCTATCAGACTCCTGCAGCCCGTGAGGGTAAAAACGGGCGCAATTAGGTGCCAGCAGAATGACTGTAAACATgtatgtgcacgtgtgtgtgtgcgtgctgtgTATTTCCTGCGGCAGCCCCGCTGTGTGtcgtctgtgtgtttgtgggtggaCTGGGGCCTTCCTGCCGCGCTGATCTGAGTGAACGTGGTATTTTTGTGTGCGAGTGCGtgcgtgtatatatgtgtgtatgttgttctTAAGAAATGATAATAGTTGTTTTTGTTGGTGGATattttcatgcattcattctcttttttttttgtcattcttgTTGCCTTTATTGTACACTAACGTGTGTTACATACCAAGTTAAGATTCAGTTTAAAACCTAAAGAGAGTTCCCATTAATTTTAATTCTCTTCAGTCCCTTTCTCTGAATCCTGCCttatgttttctttccttttttacacttttgtttttgcacttttttgttgtttggtttTGGTGTACCATTCCAGACTTGGTATAGGATTGATAGTATCTGTGTCGTCTAACTAGAGTCACAAAGTGGAGCCCTTCTCTGTGTTAGACTGGTGATTTGCACTGTTTTGTGCACATTTAATGGTATATTGGTATGTGTATTCAACTCACTCTGGTTTCTGATTCCCTACTGCCTACACAGTTTTACTCAGAGAAAGGGTGTGATAACATCTGTTCAATGCAAAGTGGGCAGGCAGTGATGAATGGAGAAGTGCAGTGTTGTTTTAGAAAAGCATTGCTCTTTTCCCCTAATGCCTCGATTTTACTTTCTGAGATTTCCTACTAACTCTCAGCAACTCGTTTAACACTTTTTTGATTCTGTCCTTGTGGTGTAATGAAAACTGCTTTATGATAATTCGAATCTGTCCCTCATTCTTTGTGGGATCTTACAAGTCGTCA

Function

GO: NA

KEGG: NA

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
XR_003402931.2 lncRNA upstream 7150 11808261 ~ 11822910 (+) True LOC113528367
TU248059 lncRNA upstream 121124 11708728 ~ 11708936 (+) True G209410
TU248037 lncRNA upstream 195579 11633912 ~ 11634481 (+) True G209392
TU248035 lncRNA upstream 211826 11618035 ~ 11618234 (+) True G209390
TU247909 lncRNA upstream 451260 11280080 ~ 11378800 (+) True cdc42ep4a
TU248481 lncRNA downstream 169527 12019863 ~ 12021132 (+) True G209775
TU248507 lncRNA downstream 211233 12061569 ~ 12061782 (+) True G209798
TU248505 lncRNA downstream 234792 12085128 ~ 12086009 (+) False tbc1d16
TU248585 lncRNA downstream 282924 12133260 ~ 12133471 (+) True G209863
TU248587 lncRNA downstream 286437 12136773 ~ 12139867 (+) False LOC113528416
XM_026917171.2 mRNA upstream 86987 11739620 ~ 11743073 (+) True s1pr5a
XM_026916500.2 mRNA upstream 152599 11671706 ~ 11677461 (+) True si:dkeyp-69e1.8
XM_026916498.2 mRNA upstream 158459 11662221 ~ 11671601 (+) False hmgxb4a
XM_026917084.2 mRNA downstream 11250 11861586 ~ 11919663 (+) True grin2ca
XM_026917101.2 mRNA downstream 183550 12033886 ~ 12045504 (+) True gaa
XM_026916961.2 mRNA downstream 199071 12049407 ~ 12086058 (+) True tbc1d16
XM_026916598.2 mRNA downstream 266103 12116439 ~ 12122136 (+) True cbx4
XM_026916600.2 mRNA downstream 279255 12129591 ~ 12132297 (+) True cbx8a
XR_004579334.1 other upstream 252237 11567119 ~ 11577823 (+) False luc7l3
XR_003402977.1 other upstream 292895 11537047 ~ 11537165 (+) True LOC113528662
TU247340 other upstream 1412179 10349402 ~ 10417881 (+) False G208781
XR_003402925.2 other downstream 308370 12158706 ~ 12188589 (+) False arhgap17b
XR_004579399.1 other downstream 1625492 13475828 ~ 13492850 (+) False zgc:158403
trnar-ucu_8 other downstream 3962906 15813242 ~ 15813331 (+) True trnar-ucu_8
TU251011 other downstream 4067881 15918217 ~ 15968759 (+) True G211913
TU251142 other downstream 4289994 16140330 ~ 16145384 (+) False LOC113527983

Expression Profile