RNA id: XM_026946084.2


Basic Information

Item Value
RNA id XM_026946084.2
length 1861
RNA type mRNA
GC content 0.55
exon number 9
gene id lmx1al
representative True

Chromosome Information

Item Value
chromosome id NC_047617.1
NCBI id CM018563.1
chromosome length 20335669
location 4528819 ~ 4565281 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

TGTAGCTCCATTGTGTGTTGCGGCTCTTCACCCGGACACACAGCGCGCGCGCCCGCAGGATTTTTAACTCCAACTTCCGCTGCGGTTTGGTTTCTGTGTTGAGGCTGAGAGTGGAGTTTAAACACACATCGCTGCTTCTGCTCATCTTCTCCCTCATCcgcatcctcctcatcctcatcacgAGTGCACGTGATCCCCGGTGTCTTTGATGTTACCTACAGAAAGCTCGGGAGGAGTGTGTTTCACCGTCAGtCAGCACTCAGAAGGAGGCCCGAACGGTATGAAAACAGAGGAAAACCAGTCATGTCTGCAGCAGGCTCCGTCTTCCACACCTTTTGagCATGTGGGCggaggtgaggtgtgtgcaggGTGTGAGTCACCCATCGCTGACCGCTTCCTCCTGCGCGTGAACGATCAGTCGTGGCACGAGACGTGTGTGAAGTGTGCCGTGTGTCTGAGCACGCTCAGTGGGACGTGCTACTCCCGAGACCGGCTGCTCTACTGCAAACACGACTACGAGAAgctgtTTGTGCGGAAGTGCAGTGCTTGCCTGCAGGTGATTGGCCGCTCAGAGCTGATCATGCGTGTGCTGGGGCAGGTGTATCACCTGGGCTGCTTCAGCTGCTGCGAGTGTGAGCGCCGGCTCCAGAGGGGTGACGAGTTTGTGCTTAAGGAAGGTCAGCTGCTCTGCCGTGGGGATtatgagaaggagagagagatgcttgCTGCCATCAGCCCCGCCCCCACCGAGTCTGTGAAGAGCGAGGATGAAGAAGGAGGCAGCAGCTCCATGGGAGGAAAAGCTGGTGATGATAGTAAAGAGCACAAGAGATCCAAGCGGCCGCGCACCATTTTAACCACACAGCAGCGCCGCGCCTTCAAGGCGTCCTTCGAGGTGTCCTCCAAACCCTGCCGAAAGGTGAGAGAGACCTTAGCAGCTGAAACTGGGCTGACGGTCCGAGTCGTCCAGGTCTGGTTCCAAAACCAGAGAGCGAAGATGAAGAAAATCGCTCGCaggcagcagcaacagcagcagcagcaggagcaggagcagatCAGCGGCAGCAGCAGGAGGGGTCCGAGCAGAGGAGGACGACTGAGTAACGACGACAGCGAGGGTGAGACGCCATACGGCTCGAGCAGTCACGGCTTAGACGGCATGCTCTCATACTCCTCCATGCCACGACAGCAGCTCTTGGCTCTCGACCCAAACCTGTACGGGGGTGAGCAGTTCCGGCACGGTCTCACACCCCCGCAGCTAGGCCCCGAGCAGATGCACCCATACGACTCAGAAACCGTTTTCCACGACTTGGACAGCGATGGAAGCCTGGGTCACCTCGGCGATTGTCTCTTGGCGACGGCAGAGGGAGGGGTGCTGGCAGGACGCGTGGGAAATCCAATTGACCGCCTGTATTCGATGCAAAACTCCTACTTCACCTCGTGACCCCTCTTCACCTCTGACCCCAGACTAACTCCACCACAGTCCACAAGAGAAGcagcaaacaaacagacaaagcCACGCTCAAAGCCCAGCGTGTTTGCCCAACTAAGCCTGCAGGATCTCTCATCCCGCAATCACACACGAGTTTACGTCAGTCATGATCCTGTAGGAATACCgttataaaatgatttaaatagcaaacaggaaatgatgcgGTTTAGGGTTCGACTAGGAATAAGATCATTGTAGCCTCATGGCTTAATcaatattaatacacacacacacacacacactcacacatttatGTCATAGGCATGCTGAATGTTCGATTAGGCAGCTGATCACCAACGTTTTACCTCATCATCCGTCTCAAACAGTCCAAACAAAATTCATTCACAAATCCATCGTTtgccaaaaaaa

Function

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated 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
TU400579 lncRNA upstream 158608 4339204 ~ 4370211 (+) True G338164
TU400554 lncRNA upstream 202324 4326052 ~ 4326495 (+) True G338147
TU400553 lncRNA upstream 209718 4316550 ~ 4319101 (+) False rsad1
TU400503 lncRNA upstream 260364 4268246 ~ 4268455 (+) True G338116
TU400439 lncRNA upstream 272920 4255557 ~ 4255899 (+) True G338057
TU400686 lncRNA downstream 51043 4616324 ~ 4620273 (+) False pbx4
TU400711 lncRNA downstream 112236 4677517 ~ 4679625 (+) True G338252
TU400706 lncRNA downstream 133151 4698432 ~ 4708744 (+) True brd4
TU400705 lncRNA downstream 152916 4718197 ~ 4731105 (+) True G338246
TU400720 lncRNA downstream 192573 4757854 ~ 4762602 (+) True LOC113546199
XM_034298837.1 mRNA upstream 4719 4498517 ~ 4524100 (+) False gmip
XM_026946092.2 mRNA upstream 4719 4498518 ~ 4524100 (+) True gmip
XM_026945943.2 mRNA upstream 34373 4477813 ~ 4494446 (+) True colgalt1a
XM_026946061.2 mRNA upstream 51847 4472183 ~ 4476972 (+) True pgls
XM_026946062.2 mRNA upstream 52057 4471731 ~ 4476762 (+) False pgls
XM_026946087.2 mRNA downstream 10335 4575616 ~ 4597433 (+) True atp13a1
XM_026945952.2 mRNA downstream 33869 4599150 ~ 4611600 (+) False LOC113546190
XM_034298325.1 mRNA downstream 33954 4599235 ~ 4611600 (+) False LOC113546190
XM_034298326.1 mRNA downstream 34019 4599300 ~ 4611600 (+) True LOC113546190
XM_034298332.1 mRNA downstream 51181 4616462 ~ 4668256 (+) True pbx4
TU400576 other upstream 173790 4352522 ~ 4355029 (+) True G338163
XR_004577078.1 other upstream 2136341 2358128 ~ 2392478 (+) False LOC113546300
XR_004577077.1 other upstream 2136347 2358128 ~ 2392472 (+) True LOC113546300
XR_004577079.1 other upstream 2136444 2358128 ~ 2392375 (+) False LOC113546300
TU399163 other upstream 2158743 2358116 ~ 2370076 (+) False LOC113546300
TU401842 other downstream 1774226 6339507 ~ 6343871 (+) False LOC113535938
TU401948 other downstream 2039376 6604657 ~ 6615872 (+) False mturn
TU401977 other downstream 2145734 6711015 ~ 6717146 (+) True G339324
TU403100 other downstream 3717679 8282960 ~ 8285204 (+) True G340208
TU403493 other downstream 4347647 8912928 ~ 8915844 (+) True sem1

Expression Profile