RNA id: XM_026947472.2


Basic Information

Item Value
RNA id XM_026947472.2
length 2368
RNA type mRNA
GC content 0.55
exon number 2
gene id foxc1a
representative True

Chromosome Information

Item Value
chromosome id NC_047598.1
NCBI id CM018544.1
chromosome length 33267568
location 6202522 ~ 6204890 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

aggcagagaaGGGAAAGAAATGAACGTGCACGAAAAAAGTCCCGCGTCTTGACGGATGCCCTGAAGTTCAGAAAGTTTTTCCAATGCGCGCTTCGgcgaagagaaagagagtgaaagagtgagcgAGGTGGCTGCAGAGACAGTACCGAGGCCCTGGACGAGAGCTGAACATTTTGTGGACTTTTTACTCTCCTtggactctttttttttcttttaaagctaGGAAAAGAAACTTAAAGTGGATTTGTGCCGTTTCGGATCTCTCGGTGGTGCTTTTCGGTCGTCGGCGGAATAATCACCATGCAGGCGCGCTACTCGGTGTCGAGCCCTAACTCTCTGGGCGTCGTGCCGTACATTAGCGGCGAGCAGAGCTACTATCGCGCGGCGGCGGCCGGCGGCGGCTACGCGGGCATGGCGGCGCCCATGAGCATGTACTCGCACGCCGCGCACGAGCAGTACCCGGGCGGCATGGCGCGGGCGTACGGGCCGTACGCGCCTCAGCCGCAGCCCAAGGACATGGTCAAGCCGCCGTACAGCTACATCGCGCTCATCACCATGGCCATCCAGAACTCTCCGGATAAGAAGATCACCCTGAACGGGATCTATCAGTTCATCATGGAGCGCTTCCCCTTCTACCGGGACAACAAGCAAGGCTGGCAGAACAGCATTCGCCATAACCTGTCGCTCAACGAGTGCTTCGTTAAAGTTCCGCGCGATGACAAGAAGCCGGGTAAGGGCAGCTACTGGACGCTTGACCCGGACTCGTACAACATGTTTGAGAACGGCAGCTTCCTGCGACGGCGGCGTCGCTTCAAGAAGAAGGACGCTCTGAAAGAGAAGGAAGACCGGCAGATCAAGGAGGCCACGTCCTCTCGCCAGCagccgcagcagcagcagcaacagggCCGCGAGCAGCAGGAGCCGACTGCTGCGCCACCAGTGCGCATTCAGGACATCAAGACGGAGAACGGTGCGTGCACGCCGCCGCAGGCCGTGTCACCCGCGCTCGGTGCGGTTCCCAAGATCGAGAGCcctgacagcagcagcagtagcatgTCAAGCGGCAGCCCGCACAGCGTGCCGTCATCTTCAGCTCGCTCCGTGGGCCTGGACGGCGGCGGTGCTGGAGagccgcagcagcagcagcagcagcagcagcatcacgCACACCACCAGCAACAACACCCACACCACGGCCACGGGCACGCGCAGGGCTTCAGCGTGGACAACATCATGACCTCGTTGCGCGGCTCGCCGCAGGGCGCCGGGGACCTCACGCCGTCTCTCGCGGCCTCCACGCGGACAGGTATAAGCCCTTCGTTGTCCCTTAACTACTCGCCGAGCCAGGCGGCCGCGTACAGCTCGCCCTGCAACCAGAGCGCCGTCTCCACTACCTCGCACGCCACCTACCACTGCAACATGCAGGCCATGAGCTTGTACGCGGCGGAGCGCGCCGGCACCACCGCCGCCAGCACCACCTCGGTGGACGAGACTTTGCCCGACTACTCCATCACGACCACCGCCGCCTCGTCGTCCTCGCTGGGCCACGCCGGCCACCTTGGCTCAGGCCAGGAGGGACACCATCCTCACTCGCATCAGGGCCGCCTCGCCTCGTGGTACCTGAACCAGGCCGGAGACCTGGGCCACCTCGGCGCCACCTACCCGACACAGCAGCAGAACTTTCACTCGGTGCGAGAAATGTTCGAGTCACAGCGGATCGGCTTGAATAACTCCCCGGTGAACGGAAATAACAGCTGTCAGATGTCCTTTCCTTCCAGCCAGTCCATATACCGCGCGTCTGGGGCTTTTGTCTACGACTGCAGCAAGTTCTGACCAAAAGTCCACTTTTGTgcgatatttttttttttatattttatttccccCTCAtttcccctttctttttttctccataaacAGAGAATCTTTGATACTTATTACCCTCTCCTCGCCATGgactgaacacacaaacacatggtgTGGGTTTATTATGGACAGTGTTACTGCAAATAACACGTAAGTCTCCTTTTTCGCTTTTGCGAGCTATatgctttgctttaaaaaaaaaaaaaaacaagaaagacaaagaaaaaaaaaacgccagcTTTTCACGGACTTGTTATTACGTGTAAATTGCATATagtaatttatttctgaaatgtaaCCGGAATATTATGGACCAAACACCCGAACCGTTTTGTTTCTAAAACTGAGTTGCCTTTAATTGTGCAGAAATGTTCCATTATAACAAGGGAACAGAAACGTGTATATCGCAATATTCATTCAAATTATCTcattttgttgaaaaaaaaaagtattctgaAGGATCTGCattctttgtttaataaattaccATTTTATTTGAGTTAAA

Function

GO:

id name namespace
GO:0006351 transcription, DNA-templated biological_process
GO:0003677 DNA binding molecular_function

KEGG:

id description
K09396 FOXC; forkhead box protein C

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU71239 lncRNA upstream 58720 6143532 ~ 6143802 (+) True trnat-ugu_2
TU71024 lncRNA upstream 303532 5897899 ~ 5898990 (+) True G60036
TU71021 lncRNA upstream 348634 5853669 ~ 5853888 (+) True G60033
TU71017 lncRNA upstream 359448 5842775 ~ 5843074 (+) True G60029
TU70979 lncRNA upstream 475081 5726602 ~ 5727441 (+) True G59993
TU71260 lncRNA downstream 3212 6208102 ~ 6208314 (+) True G60232
XR_004577958.1 lncRNA downstream 72715 6277605 ~ 6295446 (+) True LOC117596998
TU71302 lncRNA downstream 91101 6295991 ~ 6296234 (+) True G60267
XR_004577957.1 lncRNA downstream 96435 6301325 ~ 6305562 (+) False LOC117596997
XR_004577956.1 lncRNA downstream 96435 6301325 ~ 6304890 (+) True LOC117596997
XM_026947454.2 mRNA upstream 25363 6171029 ~ 6177159 (+) True foxf2a
XM_026947455.2 mRNA upstream 38682 6162153 ~ 6163840 (+) True foxq1a
XM_026947555.2 mRNA upstream 165290 6014920 ~ 6037232 (+) True irf4a
XM_026947473.2 mRNA upstream 192738 5991928 ~ 6009784 (+) True dusp22b
XM_034303604.1 mRNA upstream 273939 5919643 ~ 5928583 (+) True LOC117597064
XM_034303942.1 mRNA downstream 346095 6550985 ~ 6572077 (+) False wrnip1
XM_034303941.1 mRNA downstream 346096 6550986 ~ 6570557 (+) True wrnip1
XM_026947544.2 mRNA downstream 367178 6572068 ~ 6576902 (+) True LOC113547283
XM_034303652.1 mRNA downstream 375465 6580355 ~ 6602411 (+) True dhx30
XM_026947481.2 mRNA downstream 439638 6644528 ~ 6647156 (+) False LOC113547232
trnat-ugu_2 other upstream 58885 6143565 ~ 6143637 (+) False trnat-ugu_2
trnat-ugu_1 other upstream 63150 6139300 ~ 6139372 (+) True trnat-ugu_1
TU70896 other upstream 606396 5580144 ~ 5596126 (+) False LOC113547291
XR_004578077.1 other upstream 1014476 5179562 ~ 5188046 (+) False LOC113547261
TU70397 other upstream 1194389 4974195 ~ 5008133 (+) True G59492
trnar-ucu_1 other downstream 225596 6430486 ~ 6430577 (+) True trnar-ucu_1
XR_004578001.1 other downstream 390236 6595126 ~ 6596561 (+) False LOC117597080
XR_003402765.2 other downstream 1851166 8056056 ~ 8062839 (+) False LOC113526345
XR_004578049.1 other downstream 2490462 8695352 ~ 8724440 (+) True LOC117597156
TU72678 other downstream 2689580 8894470 ~ 8896729 (+) True G61359

Expression Profile