RNA id: XM_026916759.2


Basic Information

Item Value
RNA id XM_026916759.2
length 5698
RNA type mRNA
GC content 0.55
exon number 51
gene id col1a1a
representative True

Chromosome Information

Item Value
chromosome id NC_047607.1
NCBI id CM018553.1
chromosome length 26458119
location 10042181 ~ 10061921 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

AGTTTGCTTGGGCAGTAGGGAGTTTCTGCTGGGGTCCGCACTGGAATCAGAGGAGACCGGACCCTACTGTGTATGACTGGAGTctaaagggagaaaaaagagaacttCCCTCGCCTCAAAGAGTCTACATGTCTAATATTTAGACATGTTCAGCTTTGTGGATATCCGGCTGGCGCTGTTGCTCAGCGCAACAGTGCTTTTAGCAAGGGGACAAGGCGAGGACGACCGCACAGGCAGCAGCTGCACACTAGACGGTCAGGTCTACAATGATCGTGATGTGTGGAAACCAGAGCCATGCCAGATTTGCGTGTGCGATAGCGGCACGGTCATGTGCGACGAGGTGATCTGCGAGGACACAAGTGACTGCGCCAACCCAGTGATTCCCCCTGATGAGTGCTGCCCTGTCTGCCCTGACGACGcaGAATTCCAAGAACCCAGAGTTGAGGGACCCAAGGGTGAGCCTGGCGAGAAGGGTGACAGGGGTCCTCCTGGTCCTCCCGGCAATGACGGTATTCCTGGACAGCCTGGACTTCCCGGACCTCCAGGCCCCCCTGGACCCCCTGGCCTTGGCGGAAACTTTTCTCCTCAGCTGTCTGGAGGTTATGATGAGAAATCTGGTGGTGCTGCCCTGGCCGTTCCTGGCCCAATGGGACCCATGGGCCCTCGTGGTCCCCCTGGACCTCCTGGACTTTCTGGACCTCAAGGTTTTACTGGCCCCCCTGGTGAGCCTGGTGAGGCTGGTGCTAGTGGTCCAATGGGTCCCCGTGGTGCAGCTGGTCCTCCTGGAAAAAATGGAGAAGATGGTGAGTCTGGCAAACCTGGTCGCCCCGGTGAGCGTGGTCCTCCTGGCCCACAGGGTGCTCGTGGATTCCCTGGAACTCCCGGACTTCCTGGCATCAAGGGACACAGAGGTTTCAGTGGTCTAGATGGAGCTAAGGGAGACACTGGCCCTGCTGGACCTAAGGGAGAGCCTGGTGCACCTGGAGAGAATGGAACCCCTGGCGCTATGGGTCCTCGTGGTCTTCCTGGTGAGAGAGGCCGTGCCGGTCCTAATGGAGCCGCTGGTGCTCGTGGTAACGATGGTGCTGCTGGAGCTGCTGGTCCTCCTGGCCCAACTGGCCCTGCTGGTCCTCCCGGATTCCCCGGTGGCCCTGGAGCTAAAGGAGAGGTTGGTCCTCAGGGAGGTCGTGGACCTGAGGGACCCCAGGGTGCTCGTGGTGAGCCTGGTAGCCCTGGCCCTGCTGGTGCTGCTGGACCTGCTGGCAACAATGGTGCTGACGGTGCTCCTGGTGCTAAGGGTGCCCCTGGTGCGGCTGGTATTGCTGGTGCTCCTGGCTTCCCTGGACCCCGTGGTCCTCCTGGACCTTCTGGAGCTCCTGGTGCTGTTGGTCCTAAAGGTAACACTGGTGAAGCTGGTGCTCCTGGTGCCAAAGGAGATGCTGGTGCCAAGGGAGAGACTGGTCCACCCGGAGTTCAAGGTCCCCCTGGCCCCGCTGGTGAGGAAGGCAAGAGAGGAGCCCGTGGTGAGCCCGGTCCTGTTGGTACCCGTGGACCCTCTGGAGAGCGTGGTGCTCCTGGTGGTCGTGGTTTCCCTGGTGCTGATGGCTCTGCAGGCCCCAAGGGTGCCCCTGGTGAGCGTGGAGGCCCTGGAGTTGCTGGACCCAAGGGTGCCACTGGTGAGCCTGGCCGCAACGGTGAGCCTGGCATGCCTGGATCAAAGGGTATGACTGGTAGCCCTGGCAGCCCTGGACCTGACGGAAAGACGGGATCTGCTGGTCCTCCCGGACAAGATGGCCGCCCCGGACCCCCAGGCCCTGTTGGAGCCAGAGGTCAGCCTGGTGTTATGGGATTCCCTGGACCTAAGGGTGCTGCTGGTGAGGCTGGCAAGCCTGGTGAGAGAGGTGTGATGGGTGCCATTGGTGCCCCTggTGCTGCCGGTAAGGATGGTGATGTTGGTGCTCCTGGTGCCCCTGGCCCTGCTGGACCTGCTGGTGAGAGAGGTGAGCAGGGACCTGCTGGTTCACCTGGATTCCAGGGTCTGCCCGGACCTCAGGGTGCTACTGGTGAGCCTGGAAAGTCCGGTGAGCAGGGATTGCCTGGTGAAGCTGGTGCCCCCGGACCTTCTGGAGCTAGAGGTGATAGAGGATTCCCTGGTGAGCGTGGAGCCCCTGGTATTGCTGGTCCTTCTGGCCCACGTGGTTCTCCTGGTTCAGCTGGTAACGATGGTGCCAAGGGAGAGTCTGGTGCTCCCGGTGCTCCTGGTGCTCAGGGTGCTCCTGGTCTTCAGGGTATGCCTGGTGAGCGTGGTGCTGCTGGTCTGCCAGGCCTCAAGGGAGACAGAGGTGACCAAGGTGCTAAGGGTGCTGATGGTTCCCCTGGTAAGGATGGCATCCGTGGTTTGACTGGACCTATTGGACCTCCTGGACCAGCTGGCCCTCAGGGTGACAAGGGAGAGCCTGGTGCTGCTGGACCTCTTGGACCTACTGGTGCCCGTGGACCCCCTGGAGAGCGTGGTGAGACTGGTGCTCCTGGACCTGCCGGATTTGCCGGACCACCTGGTGCTGATGGTCAGCCTGGTGCTAAGGGAGAGGCTGGAGACACTGGTGCCAAGGGAGATGCTGGTGCTCCCGGACCTGCTGGAGCTACAGGTGCACCAGGACCTCAGGGTCCTGTTGGTGTTACTGGTCCTAAAGGTGCCCGTGGTCCTGCTGGTCCTCCTGGAGCTACTGGTTTCCCTGGTGCTGCTGGAAGACTTGGACCTCCTGGCCCTGCTGGTAACCCCGGACCACCTGGACCTCCTGGAGCCTCTGGAAAGGAAGGTGCAAAGGGTCTTCGTGGTGAGACCGGACCTGCTGGTCGCACTGGTGAGATTGGTGCTGCTGGTGCTCCTGGTGCACCTGGTGAGAAAGGAACTCCTGGAGCTGAGGGTCCCCCTGGCCCTGCTGGTATACCTGGACCTCAAGGTCTCTCTGGACAGCGCGGTATTGTTGGTTTCCCTGGACAGAAAGGAGAGCGCGGTTTCCCTGGTCTCCCAGGACCATCAGGAGAGCCTGGTAAGCAGGGACCTGGTGGCCCCTCTGGCGAGCGTGGACCTCCTGGACCCATGGGACCCCCAGGACTGGCTGGACCTCCAGGCGAGGCTGGTCGTGAGGGAACTCCTGGTAACGAGGGTGCTGCTGGCCGTGATGGTGCTGCTGGTCCCAAGGGTGACCGTGGTGAGACTGGTGCTGCTGGTGCTCCTGGTGCTCCCGGACCCCCTGGAGCTCCTGGACCTGTTGGCCCTGCTGGAAAGACTGGCGATCGTGGAGAGTCTGGTCCTGCTGGTCCCGCTGGTGCTGCTGGCCCTGCTGGCCCCCGTGGCCCTGCTGGACCCGCTGGAGCCCGTGGAGACAAAGGTGAGGCTGGTGAGGCTGGAGAAAGAGGCATGAAGGGACACAGAGGATTCACCGGAATGCAGGGACCACCTGGACCTCCCGGACCTTCAGGAGAGCCTGGACCTGCTGGAGCTTCTGGCCCTGCTGGACCTAGAGGACCTGTTGGAGTTGCTGGTTCTGCTGGTAAGGATGGCATGAGTGGACTTCCTGGACCCATTGGACCTCCTGGACCTCGTGGTCGCACTGGTGAAATTGGACCAGCTGGACCTCCTGGACCTCCTGGACCCCCTGGACCTCCTGGACCATCCGGTGGTGGATTTGACATTGGCTTCATTGCTGCACCCCAGGAGAAGGCCCCTGATCCTTTCCGTCACTACCGTGCTGATGATGCCAATGTGATGCGTGACCGTGACCTGGAGGTTGACACCACCCTTAAGTCCCTGAGCCAGCAGATTGAGAATATCCGCAGCCCCGATGGCACCAAGAAGAACCCTGCCCGCACCTGCCGCGACCTGAAGATGTGCCACCCTGACTGGAAGAGCGGTGAGTACTGGATTGACCCTGACCAGGGCTGCAACCAGGATGCCATCAAGGTCTACTGCAACATGGAGACTGGCGAGACCTGTGTCTACCCAGCACAGGCTGACATTCCCAAGAAGAACTGGTACACAAGCAAGAACATCAGGGAGAAGAAACATGTCTGGTTTGGAGAGGCTATGACTGATGGCTTCCAGtTCGAGTATGGCAGTGAGGGCTCCAAGCCTGAGGATGTCAACATCCAACTTACCTTCCTGCGCCTTATGTCCACTGAGGCCTCCCAGAACATTACATATCACTGCAAGAACAGCATTGCATACATGGATCAGGCCGCAGGCAACCTTAAGAAGGCTCTGCTGCTGCAGGGCTCCAATGAGATCGAGATCAGAGCAGAAGGCAACAGCCGCTTCACATACAGCGtcactgaagatggctgcacgTCGCACACTGGTGCATGGGGCAAGACAGTCATCGACTACAAAACAACGAAAACATCTCGGCTGCCCATTACTGACATCGCTCCTATGGACGTTGGTGCACCCGATCAGGAATTTGGCATTGAAGTTGGCCCAGTCTGCTTCttgtaaaaaagaaatctggacttgaaattgtttgtgtgttgtgtgtgtgttttttctagCAGTCATCTCTCTAAAATCTTTtctatgcattaaaaaaaaaaaccctagacTTCGATTTGGCTGTCCGAATGGTCCACTTGCTTAGAACTACGCTTCAGAAGACAGTGGTTATGTGTTATCAAGCTTTTTTTGGGACCACTATTttaacaccaccaacaccgAGGACACTTTAGAAGACTCATTTGTTTCACTGGCCacaagaaaataatatatacttgtaaagtgtaaaatccccctggaaaaaggaaaaaaacatcagagaTACAGGTGACTTTTTTACCACTGCGGAAGGacaatgaaaaagagaaaacaaatgctTTGTACCATGTTCAggtgttaaataaatctgtaaaatgacatttaagTGTCTTTGTGTTCTACCCATCAGAACAAGTGATCAACAGGCACAACCACCATTGTTCTCAGACAGAACAGAATTAATATGAGACAGGGGTTTTGATATCTTATGTCTACCTCAGAAAAGAAACCTATATTATTACCCAGTGTTGACCAACACCAGGTTAGGATTTTACACAGAAGTATGGTTAAGAAAGCAAGAAACAGCTGCAAAGGTGCTATTTCATGAGGTCCTGTTAGTGGGATGTGTTAGAGCAGTTTCTAAAGTAATGTATTATTTCACTCTTGCTCACAGGGCCTTTGGTGCTAAAATCATATTCTCTTGCTGTCCAGTTATAACACATGCCCCTCTTGCTAAAGGACACTGCTTCAATTTCTGTAGCAGATTCTTTGTTAGGGAAATATAATTAAGCTTTGACGCACATCGTCTTTTCAAGTGTAGAAATAAGCAGGTGGAGTCTATTATTTTTCCAACACCTTTTGACACTTTTTGGTTGTTATCTTGATTTCTTTACAAAACATCCCCATGTTGTCCAGTGATTACTTTCAGTGCTTCCATTCTACCACTTTTGTATCAGGATTTGTtggttttcagtttttgttttttttaactagggATTTTCAAAGATGGCAAGAGAAATAGGGATCCCCAAAACTAGTGAGAGAAGCATACACACAATAGGGGGTTAAAACAAGATGATCTGTACCTattttgtatatgtataataatttgagatgtttttaattattttgagtGCTGAAATAAAGCATGTTAAGTGGTCGATCTAA

Function

GO:

id name namespace
GO:0005581 collagen trimer cellular_component
GO:0005201 extracellular matrix structural constituent molecular_function

KEGG:

id description
K06236 COL1A; collagen type I alpha

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU247081 lncRNA downstream 114239 9841027 ~ 9927942 (-) False LOC117599011
TU247080 lncRNA downstream 114273 9877627 ~ 9927908 (-) True LOC117599011
TU247137 lncRNA downstream 124652 9914907 ~ 9917529 (-) True G208613
TU247084 lncRNA downstream 158984 9858759 ~ 9883197 (-) False LOC117599011
XR_004579453.1 lncRNA downstream 197760 9829627 ~ 9844421 (-) False LOC117599011
TU247174 lncRNA upstream 2056 10063977 ~ 10066356 (-) True G208649
TU247295 lncRNA upstream 125115 10187036 ~ 10187252 (-) True G208758
TU247314 lncRNA upstream 159789 10221710 ~ 10290885 (-) True G208771
TU247529 lncRNA upstream 279990 10341911 ~ 10342222 (-) True G208951
TU247554 lncRNA upstream 385815 10447736 ~ 10450540 (-) True G208964
XM_026916517.2 mRNA downstream 9096 9988116 ~ 10033085 (-) True ppp1r9ba
XM_026917222.2 mRNA downstream 137787 9896866 ~ 9904394 (-) False nr1d1
XM_026917220.2 mRNA downstream 138927 9896866 ~ 9903254 (-) False nr1d1
XM_026917219.2 mRNA downstream 138928 9896866 ~ 9903253 (-) True nr1d1
XM_026916217.2 mRNA downstream 272263 9767867 ~ 9769918 (-) True hoxb13a
XM_026917099.2 mRNA upstream 60465 10122386 ~ 10134023 (-) True nags
XM_026917296.2 mRNA upstream 84927 10146848 ~ 10185101 (-) True mosmoa
XM_026917246.2 mRNA upstream 135587 10197508 ~ 10207214 (-) True si:ch211-256e16.3
XM_026916019.2 mRNA upstream 147427 10209348 ~ 10213411 (-) True anks4b
XM_034310094.1 mRNA upstream 161474 10223395 ~ 10229399 (-) False dxo
XR_004579397.1 other downstream 310931 9730842 ~ 9731250 (-) False hoxb8a
XR_004579423.1 other downstream 567703 9466480 ~ 9474478 (-) False copz2
TU246803 other downstream 622597 9409804 ~ 9419584 (-) False prr15la
trnac-gca_22 other upstream 323128 10385049 ~ 10385120 (-) True trnac-gca_22
XR_003402902.2 other upstream 389575 10451496 ~ 10470518 (-) False tecpr1b
XR_003402978.2 other upstream 1370589 11432510 ~ 11432628 (-) True LOC113528663
XR_003402963.1 other upstream 1474639 11536560 ~ 11536678 (-) True LOC113528647
XR_003402973.1 other upstream 1504089 11566010 ~ 11566128 (-) True LOC113528658

Expression Profile