RNA id: XM_026925119.2


Basic Information

Item Value
RNA id XM_026925119.2
length 3018
RNA type mRNA
GC content 0.48
exon number 11
gene id lmx1bb
representative True

Chromosome Information

Item Value
chromosome id NC_047602.1
NCBI id CM018548.1
chromosome length 30442583
location 19143547 ~ 19200105 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

GTGGTCCAGTTCTGTGATTAGGCCACAGTTTGATGTGATTATGATCGTCTTTCCCCGTCCTGCTCTGGCTCTTCGCTCTGGCTGCGCGCGTTTGGAGGCGGACCGGCTTTAGTTTCCACTCGGCACCAATCGCGTCCTGGCGGCAGTAAATAGGCTGAGGAGTGACGCGGCCACTAAGGGGAGGGCGTATTCCCTCACTTCTACCTCAGTTTAGGGTTCTCCTCAGCGCTGGGGATCTGAATGGCACACTGTTCACACTGTGACATCTCAGACAGATTCCCTTGGATATTTTCCTCAGCTATTGTCTCTCATTCTATCATTGCGTTCATATTTTCGGGGTGTCGAAGCAACTTTGCGTGCGCAGTAGGCTCCAGAGCGAGAGGATCCTCCTATTGCAGTTCGCCATAACGCGGCAGGGATACAAACTTTGTGCTAAAGGCGCGTCTAAGCTCCAGCAGCACTAATTAACAGGTCCTGAGCCACAGGAGAGGCGCTTCTCAGCGGGAAAAGAGTCTCAGAGCTCAAGTATGTTGGACGGTATCAAAATTGAAGACCATCCGCTCCGGACGGGACCAGCCACTCTGGGAGTTATGCTAGGTAAGCCTTCGCAGGCTGCTGCATGGAAACTAAACACGGCTGTGAAACGCTCGGAGTGCCATCAGCAGGCGGTGTGTGAGGGTTGCCAGCGGCCCATAGCCGACCGCTTCCTGATGCGCGTCAACGAGTCCTCGTGGCACGAAGAGTGTTTGCAGTGCGCCGTGTGTCAGCAGCCGCTCACCACCAGCTGCTACTTCCGAGACAGAAAACTCTACTGCAAACATGACTACCAACAGTCTGGAAATCAAGAGGCACTACTGAAAATACGATTATTTGCTACTAAATGCAGTGGATGCCTGGAGAAGATAGCACCCACAGAGTTTGTGATGCGGGCGTTAGAGTGCGTGTACCACCTCAACTGcttctgctgttgtgtgtgCGACCGACAGCTGCGCAAAGGCGACGAGTTTGTACTGAAAGACGGCCAGCTGCTGTGCAAGAGTGACTATGAAAAGGAGAAAGATCTGCTTGGATCCGTCAGCCCTGATGACTCTGATTCAGAGAAGAGCGAGGATGAGGAGCTGGATATCAAGCCGGAGAAGTGCTCTGGAGGCCCGGGCAAAGGGGATGATGGGAAGGATCCAAGGAGACCCAAACGACCACGTACCATCCTCACCACACAGCAGAGACGGGCCTTCAAGGCTTCGTTTGAGGTGTCCTCCAAGCCCTGCCGGAAGGTGAGAGAAACCCTGGCTGCTGAAACAGGCCTGAGTGTACGTGTGGTTCAAGTGTGGTTCCAGAACCAGAGAGCCAAGATGAAGAAGTTGGCCCGaagacagcagcagcaacaggaGCAGCAGAACTCCCAAAGGCTGGGCCAAGAGGTGATGTCTAATAGGATGGAGAACATGATGAACTCCTACACACCATTGGCCTCTGCACAGCAGCAGATGGTTGCCATGGAAAACGGCTACACCGCTGATGCCTTCCAGCAGGGCCTCACCCCACCTCAGATGCCTGGTGACCACATGAACCCATACGGAAATGACTCCATATTCCATGACATCGACAGTGACACCTCCTTGACCAGCCTTAGCGACTGCTTCATGGCTTCTTCAGAAGCAGGCTCACTGCAGGCACGTGTGGGAAACCCCATTGACCGACTTTACTCCATGCAGAGCTCTTATTTTGCATCATGAAAGCCAGCATGGACAGGGACAACCAAATGTGGGTTCACTTACTGCAACCCACTGCTCCCTTTATTACATGCCTCGGAACCAAGACCTCTCAGCAAAGACCTCTACTATGGATAAAGGGCCAAAAAAAGCCCAGAATATGAAAATCATAGAACTTGAAAACAAGCGTCCTTGATATTCAGTAGTGAAAAATGCAGCTCAGGACACCTGGTTTTCTGAGGCTGACAGACTTTTTCTAGATATGTTTGTACAATACTTTCACAGAAGTAGCACGAATTGTCAACATCCACCTATGGTAGAAAAGATGTACAGTTAAAAGCCCTGAAGCCACAAACCTCAGTCCACAGCATCCTGCCAAGGAAGGCTGAAGATCAACACATAAATCTCACAATGCATGAAGTCATATTCTTTGTGAACATGGcattgaaaaagaaaatctttagAAAATAGCTGAAAAAATCTTGTGTTGTTGAGATGTTTAAATGTGATGTTTGGACTCTCATATTTTTTCGTTATGTTCAGCATTGCATTTTTATCACTTTAATAGGTTTAGCTATGAAAGTGGAGTTAGAATTTTAGAGGGAGGAGGaatgtatagtgtaagtgtacaTGCTTGTATGggggtatgtgtgtgcgcgtgtgtgcgtgtgcgtgtatgaatgtgtgagcGTTTGATGTAGTCacctctctgtatgtgtgttgtgcttcagcGTGTTATAGTTTGAaagacagtaagagacagaaAGCAAAAGCTCTATCCTTGTGTAAATATATGTTTCCCGAACAAATCAGCTGTGCATGTTCAAATGGAGAAcattctatttatttaactaaacCATGCTCTTGAAGGTACTTAAGTAACTgaaaagctttatttaaaaaggagAAAACCACATCAAGTAGTACAAGCGTTATTATCACAGCTCACATGTAtatcatttaataattaaatatatccCCTTTTTCAGCTTAGATGTACATCAGCAAATGTGTgctatttatttgttataaGCCCAGAACCAGGGCTTCTCAACCAGTCCTGGGGACCCACTGACCTGGTGTGAGGATTTCCTAACTGTGATTCAGCTGATTATTAAGCCCTTCATCAGCTGGATCAGGTGTATTGGCAGCGAGGAAATGTTGGAACGCTGTGCAGTTCAGTTGGTTCCCAAAATGGAAGCTGAGAAACCTTGCCCATAAACATTGACGAAATGCATTTCCAAATGTGAACACTGCTAAATTACCAAAGTTTGTTGGTATAACGAATAAACTCTGTTTCTCCTGA

Function

GO:

id name namespace
GO:0061386 closure of optic fissure biological_process
GO:0048752 semicircular canal morphogenesis biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0060117 auditory receptor cell development biological_process
GO:0021592 fourth ventricle development biological_process
GO:0032474 otolith morphogenesis biological_process
GO:0060041 retina development in camera-type eye biological_process
GO:0030917 midbrain-hindbrain boundary development biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG:

id description
K09371 LMX1; LIM homeobox transcription factor 1

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU159609 lncRNA upstream 191244 18949227 ~ 18955201 (+) True G135101
TU159598 lncRNA upstream 262664 18883368 ~ 18883781 (+) True G135090
XR_003403429.2 lncRNA upstream 272824 18870421 ~ 18873621 (+) True LOC113533586
XR_003403430.2 lncRNA upstream 274540 18870417 ~ 18871905 (+) False LOC113533586
TU159590 lncRNA upstream 333735 18812490 ~ 18812710 (+) True G135085
TU159675 lncRNA downstream 69229 19269334 ~ 19269668 (+) True G135164
TU159680 lncRNA downstream 121857 19321962 ~ 19323271 (+) True G135169
TU159822 lncRNA downstream 208449 19408554 ~ 19484934 (+) True G135292
TU159824 lncRNA downstream 232527 19432632 ~ 19516745 (+) True G135294
TU159840 lncRNA downstream 285793 19485898 ~ 19486457 (+) True G135309
XM_026925843.2 mRNA upstream 464513 18436185 ~ 18681932 (+) False pbx3b
XM_034307036.1 mRNA upstream 464514 18436185 ~ 18681931 (+) False pbx3b
XM_034307037.1 mRNA upstream 464514 18436186 ~ 18681931 (+) False pbx3b
XM_034307038.1 mRNA upstream 464515 18436186 ~ 18681930 (+) False pbx3b
XM_034307039.1 mRNA upstream 562794 18436187 ~ 18583651 (+) False pbx3b
XM_026925056.2 mRNA downstream 45643 19245748 ~ 19264636 (+) True zbtb34
XM_026925137.2 mRNA downstream 70521 19270626 ~ 19389662 (+) True ralgps1
XM_026925139.2 mRNA downstream 70521 19270626 ~ 19389662 (+) False ralgps1
XM_026925138.2 mRNA downstream 70521 19270626 ~ 19389662 (+) False ralgps1
XM_034306323.1 mRNA downstream 198633 19398738 ~ 19404045 (+) True LOC113533125
TU159255 other upstream 684511 18436210 ~ 18461934 (+) False pbx3b
XR_003403426.2 other upstream 1097556 18030975 ~ 18048889 (+) True vdac3
TU158711 other upstream 1849562 17296111 ~ 17296883 (+) True G134341
XR_003402556.2 other upstream 2411110 16716133 ~ 16735335 (+) False bicdl1
TU158261 other upstream 2545860 16580453 ~ 16600585 (+) False mtmr3
TU159806 other downstream 287382 19487487 ~ 19502643 (+) True G135287
XR_004578531.1 other downstream 1022310 20222415 ~ 20442191 (+) True LOC113533440
XR_004578533.1 other downstream 1022310 20222415 ~ 20442191 (+) False LOC113533440
XR_004578532.1 other downstream 1022310 20222415 ~ 20442191 (+) False LOC113533440
XR_004578534.1 other downstream 1022310 20222415 ~ 20442191 (+) False LOC113533440

Expression Profile