RNA id: XM_034306595.1


Basic Information

Item Value
RNA id XM_034306595.1
length 5320
RNA type mRNA
GC content 0.56
exon number 53
gene id col2a1a
representative False

Chromosome Information

Item Value
chromosome id NC_047602.1
NCBI id CM018548.1
chromosome length 30442583
location 11738339 ~ 11763591 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

CATAACTGCACCGGTGGACATAAAACCGCGGAGCTCGCGCTGACGCGGTGGGTGCTGTCTGCGCACAGGGGCCTGGCGTCGGATcccccaaaaaacacacaacactcatCAAAAAGCCAACACACTCCCTGCGATACACTGCAGCTGCAGCTTCGCCGATCTCGGCGAAATCTTTCACTCTGAGGAACTGCATGTCTGACTTTTAGACATGTTCAGATTTGTGGACTCACGGACTGTCCTGCTACTTGTAGCGACACAATGTATTTTGCAAGCCGTTGTCAGATGTCAACGAGAGGATGACCAGACCTTTGGTGCAAAGGGACAAAAAGGAGAACCTGGCGATATTGCAAATgTTCTAGGACCGAGAGGACCGGCTGGCCCCATGGGACCACCTGGAGAGCAGGGACCACGTGGAGAGAGAGGCCCTAAGGGTGAGAAGGGAAGTCCAGGCCCCAGAGGAAGAGACGGCGAGCCCGGCACTCCAGGCAACCCTGGACCTCCCGGACCTCCCGGCCCACCAGGCCCAAACCCACCTGGACTTGGAGGAaaCTTTGCGGCTCAGATGGCTGGAGGTTTTGATGAGAAAGCAGGAGGAGCTAACATGGGTGTGATGCAAGGCCCGATGgGCCCCATGGGTCCCCGTGGTCCCCCTGGTCCCACTGGAGCACCTGGCCCACAAGGGTTCCAAGGCAGCCCGGGAGAAGCTGGCGAACCTGGACCTTCTGGCTCTATGGGACCTCGTGGCCCACCTGGACCACCTGGAAAATCTGGAAGTGATGGTGAGAATGGCAAACCTGGTAAGCCTGGTGACCGTGGACCCACTGGACCTCAGGGAGCTCGTGGATTCCCTGGAACCCCTGGACTTCCTGGCATCAAGGGACACAGAGGACACCCAGGTCTTGATGGCGCCAAGGGAGAGACTGGAGCTGCTGGAGCTAAGGGTGAGTCAGGTGCACCTGGTGAGAATGGCGCCCCTGGACCGATGGGCCCTCGTGGTCTTCCTGGTGAGAGAGGACGCCCTGGACCCTCTGGAGCTGCTGGTGCCCGTGGTAATGATGGTCTTCCTGGGCCTGCTGGTCCTCCTGGTCCTGTTGGTCCTGCTGGTGCCCCAGGTTTCCCAGGAGCCCCTGGTTCTAAGGGTGAGGCCGGACCTACTGGTGCTCGTGGAGCTGAGGGAGCCCAAGGACCCCGTGGAGAGGCTGGCACTCCAGGTTCTCCTGGACCTGCTGGAGCTTCTGGTAACCCTGGTACTGATGGTATTCCTGGAGCTAAAGGATCTGCTGGTGCCCCTGGTATTGCTGGTGCCCCAGGATTCCCAGGACCTCGTGGCCCACCTGGACCTCAGGGAGCTACCGGACCTCTTGGGCCCAAGGGTCAGAGTGGAGACCCTGGTATCCCAGGATTTAAGGGAGAGGCTGGACCAAAAGGAGAGAGGGGTGTTGCAGGACCTCAGGGTGCCCCAGGCCCAATTGGTGAAGAGGGTAAGAGAGGACCTAGAGGAGAGCCCGGTTCTGCTGGCCCTCTTGGACCtccaggagagagaGGAGCTCCAGGTAACCGTGGATTCCCAGGTCAAGATGGTCTTCCTGGTGCTAAGGGTGCTCCTGGTGATCGTGGTGTTTCTGGATTGTCTGGACCAAAAGGGGCTGTTGGAGATCCTGGTCGTCCTGGCGAGCCTGGTCTTCCTGGGGCAAGAGGTCTCACTGGTCGCCCTGGAGATGCTGGACCCCAAGGAAAAGTTGGCCCAACTGGTGCTCCTGGTGAGGACGGTCGTCCTGGTCCCCCTGGGCCTCAGGGAGCTCGTGGACAGCCTGGCGTGATGGGATTCCCCGGACCCAAGGGAGCCAATGGAGAGCCTGGCAAATCTGGAGAGAAAGGACTTGTTGGCAGCCCTGGTCTCAGAGGTTTGCCTGGTAAAGATGGGGAGACTGGAGCTGCTGGTCCTCCTGGCCCTGCTGGACCTGCTGGAGAGAGAGGTGAACAAGGACAGCCTGGTCCTCCTGGCTTCCAGggtTTGCCTGGACCTGGTGGACCACCAGGAGAGGCCGGCAAACCAGGTGACCAGGGTGTTCCTGGAGAGAGTGGTGCCCCTGGTGTGGTTGGACCAAGAGGTGAGCGTGGTTTCCCTGGTGAGAGAGGAAGTGCTGGACCCCAGGGTCTTCAGGGACCCAGAGGCCTTCCTGGAACTCCTGGAACTGATGGACCCAAGGGTGCCATAGGCCCGGCTGGTACTGCTGGTGCCCAGGGTCCTCCTGGTCTGCAGGGTATGCCAGGTGAAAGAGGTTCTGCTGGTATCTCTGGACCTAAGGGTGACAGAGGTGACTCCGGAGAGAAAGGACCTGAGGGAGCTCCTGGCAAAGATGGTGCAAGAGGTTTGACTGGCCCTATTGGTCCACCTGGTCCTTCTGGTCCCAATGGAGCTAAGGGTGAAACTGGTGCTATTGGCCCAACTGGACCTGCTGGAGCTCGTGGTGCTCCTGGTGACCGTGGTGAGGTTGGACCTCCTGGCCCTGCTGGTTTTGCTGGACCCCCTGGTGCTGATGGCCAGCCCGGATTGAAAGGAGAACAGGGAGAGTCAGGCCAGAAAGGAGATGCTGGATCCCCTGGACCTCAAGGACCCTCTGGAGCACCCGGTCCAGTTGGCCCAACTGGTGTCTCTGGACCTAAAGGAGCCCGCGGAGCACAGGGAGCCCCAGGTGCTACTGGTTTCCCAGGCGCTGCTGGAAGAGTTGGACCACCCGGTCCTAATGGTAACCCTGGCCCTGTTGGTCCTGCTGGTCCTTCTGGTAAAGATGGTCCTAAGGGAGTGCGTGGTGATGCTGGTCCACCAGGAAGACCAGGAGATGCTGGACTGCGTGGACCTCCTGGAACCCCTGGAGAGAAGGGAGAGCCTGGAGAGGATGGCCCCCCTGGTCCTGATGGTCCTACTGGTCCTGCAGGTTTAGCTGGTCAGCGTGGTATTGTTGGTCTGCCTGGTCAGCGTGGTGAGAGAGGTTTCCCTGGCCTTCCAGGACCTTCTGGTGAGCCTGGCAAACAGGGTGCTCCTGGTTCTGGTGGTGAACGTGGACCCCCTGGCCCTGTTGGACCCCCTGGACTGACTGGACCTACTGGAGAACCTGGGCGTGAGGGTAATCCTGGATCTGATGGTCCTCCTGGCCGAGATGGTTCTGCTGGTGTGAAGGGTGAACGTGGTAACACTGGTCCTATTGGTGCTCCTGGTGCTCCTGGTGCCCCTGGTTCTCCTGGTCCCGTTGGTCCTGTAGGCAAACagggagacagaggagagagtGGAGCACAAGGACCTGCTGGACCTCCTGGACCTGCTGGAGCAAGAGGCATGGCTGGACCCCAAGGTCCACGTGGAGACAagggagaggctggtgaagctGGAGAAAGAGGACAGAAGGGACACAGAGGATTCACTGGTCTGCAGGGTCTTCCTGGACCTCCTGGTTCTCCTGGTGACCAGGGTGCTGCTGGACCTAGTGGACCTAGTGGACCTAAGGGACCCCCTGGACCTGTTGGTCCAGCTGGAAAGGATGGCGCGAATGGTATCCCTGGACCCATTGGACCCCCTGGACCACGTGGACGCTCTGGAGAAACTGGCCCAGCTGGTCCTCCTGGTAACCCTGGACCCCCTGGTCCTCCTGGTCCTCCAGGCCCTGGCATTGATATGTCTGCCTTCGCTGGGTTGGGTCAGACTGAGAAGGGCCCCGATCCCCTGCGTTACATGCGTGCTGATGAGGCCTCCAACAATCTGAGACAGCATGATGTGGAGGTTGATGCCACCCTGAAATCCATTAACGGCCAGATTGAGGATATCCGCAGCCCTGATGGATCTCGCAAGAACCCTGCTCGCTCCTGCCGTGACCTGAAACTCTGCCACCCTGATTGGAAGAGCgGTGACTACTGGGTGGATCCTAACCTTGGCTGCACTGCTGATGCCATCAAGGTCTTCTGCAACATGGAGACTGGAGAAACATGTGTGAAGCCCACTACAAGCAGTATCCCACGCAAGAACTGGTGGAGCACCAAGAGCAAGGGTCAGAAGCACGTATGGTTCGGCGAGAACATGGGTGGTGGCTTCCATTTCAGCTATGGTGATATGATGCCAACTCCAAATGTGGCCAGCATTCAGATGAACTTCCTGAGACTGCTATCTAGCGAGGCCTCTCAGAGTATCACCTACCACTGCAAGAACAGCGTGGCCTACATGGATGAGACCACCGGCAACCTGAAGAAGGCTCTTCTGCTGCAGGGCTCCAACGATGTGGAAATCAGAGCAGAGGGTAACAGCCGATTCACATACAGTGTGCTGGAGGATGGCTGCAAGaaacacacaggccAGTGGGGTAAGACTGTGATTGAGTACAAAACTCAGAAGACATCTAGACTGCCCATCGTGGACATTGCTCCTTTGGACATCGGTGGAGCTAATCAGGAGTTTGGAGTGGACATTGGACCAGTCTgtttcttgtaaaaaaaaacaaaaaaaacaaaacaaaacaaatgtggGACACAATATAAGACATGGAAAGATATAAATGATAAGCAATAGCTCCATGAAGAAGCAATACACTCtccaaataaagaaatatggaAGTAAAGGAAAAGGAAACCAAATTGAAAATTGATGAATGCTTTTGTCTCTAACACACAAAAGTTGTGCATTTAGTGCCCTGGAGACCAGCACTAAGCAGCACTGCCCCATGAGTCTCTCCCTCTGAAATCCAGCCATGTTTCCCCTCAAAGCATCCTTCTTTCTGATGGGAGCTGAGACGAGGAAGTAACGAGTGAGCAAGACTAAATGAGTAAGAGATGGAAAGTGCAGAAACATGGCTAGATGTCATCACATACGGCAGGTGGGAGTGGTGCTTTAGAGCTGGGTGCATTTTGGCTGTATACAACAGAAGCCCCTCCCACTAAGACCATCTTGAACCACACCCAGTCCCACTCAGCCCCTCCCTCTGCTTCCTGACTGTGACTCAGTAAAAACATCACATTCTGCTAGGTATTGTGAAATgttaaaactggggagggtgggAGTTAATATTTACTGtgtataataaagtaaaatccTGGTTCAGTTGTTGTAAAAGTCTGTTCTGCAACAGCTAGATCTATATATTTTCACAATTATATGTGTTTGCGTGAGAGAGTGTGTACCTGTGCACACCAAAAACTTTTTTGGGGGAAGTGCAGTTTTtagttttcctttctttttttttttagtgtacttCAGTATTTTCCCCTTGACTGCCCATTTAGGAAGTGTTGTCCCTTTAccaaaaaagcaaaagtaaaataaatttggACGATA

Function

GO:

id name namespace
GO:0030903 notochord development biological_process
GO:0005581 collagen trimer cellular_component
GO:0005201 extracellular matrix structural constituent molecular_function

KEGG: NA

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU154767 lncRNA upstream 20454 11716832 ~ 11717885 (+) True G131061
TU154744 lncRNA upstream 48665 11677903 ~ 11689674 (+) False uck2a
TU154619 lncRNA upstream 186308 11548962 ~ 11552031 (+) True G130960
XR_004578615.1 lncRNA upstream 378959 11355449 ~ 11359380 (+) True LOC117597850
XR_003402857.2 lncRNA upstream 789993 10944657 ~ 10948346 (+) True LOC113527270
TU154974 lncRNA downstream 218174 11981765 ~ 11988425 (+) False foxp3a
TU154975 lncRNA downstream 229228 11992819 ~ 11993039 (+) False foxp3a
TU154976 lncRNA downstream 230823 11994414 ~ 11994800 (+) False foxp3a
TU155067 lncRNA downstream 453413 12217004 ~ 12217214 (+) True G131279
TU155070 lncRNA downstream 462561 12226152 ~ 12226362 (+) True G131282
XM_026921446.2 mRNA upstream 21665 11714943 ~ 11716674 (+) True spryd4
XM_034306353.1 mRNA upstream 24307 11705547 ~ 11714032 (+) True porcn
XM_026924198.2 mRNA upstream 38971 11696883 ~ 11699368 (+) True magoh
XM_026926870.2 mRNA upstream 41548 11677511 ~ 11696791 (+) True uck2a
XM_034306367.1 mRNA downstream 2449 11766040 ~ 11791173 (+) True cry3a
XM_034306366.1 mRNA downstream 2449 11766040 ~ 11791173 (+) False cry3a
XM_034306368.1 mRNA downstream 2449 11766040 ~ 11791173 (+) False cry3a
XM_026913762.2 mRNA downstream 39457 11803048 ~ 11839884 (+) True itpr3
XM_026923200.2 mRNA downstream 77992 11841583 ~ 11849987 (+) True alas2
TU154763 other upstream 27794 11709454 ~ 11710545 (+) False porcn
TU154756 other upstream 28907 11705655 ~ 11709432 (+) False porcn
TU154757 other upstream 28907 11705655 ~ 11709432 (+) False porcn
TU154760 other upstream 30378 11705655 ~ 11707961 (+) False porcn
XR_003403367.2 other upstream 104495 11622310 ~ 11633844 (+) False LOC113530800
trnad-guc_1 other downstream 618408 12381999 ~ 12382070 (+) True trnad-guc_1
trnav-cac_9 other downstream 1298345 13061936 ~ 13062008 (+) True trnav-cac_9
trnaf-gaa_25 other downstream 1300459 13064050 ~ 13064122 (+) True trnaf-gaa_25
trnae-cuc_18 other downstream 1605957 13369548 ~ 13369619 (+) True trnae-cuc_18
TU156117 other downstream 1941665 13705256 ~ 13707550 (+) False LOC113527348

Expression Profile