RNA id: XM_026920560.2


Basic Information

Item Value
RNA id XM_026920560.2
length 3284
RNA type mRNA
GC content 0.41
exon number 2
gene id hoxc6a
representative True

Chromosome Information

Item Value
chromosome id NC_047610.1
NCBI id CM018556.1
chromosome length 25111544
location 20394933 ~ 20398744 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

AATATGGGCAATATGAAGAATTTGATATCCAgctctgagattttttttttattgttgtctttTGTTTAGAGCTACTctataaaatattgttttagtAATGTTTATGAATGAAATTACTTCAATTAATAAGCAATTTCCATAGCTTTCTCGTTTCGATGTACTTTTCATTTACAATTAGAGACTAAACTCTACTGCTCTGTCAGTCTAATGTCGTGCGCACCTCTTTCAGAGCCACTGTTTTTGGCTTCACACTTTCCGTCATGCGGACTGCATTAAGGTCATTTGCTCTCCACCACTCACTTATTTCAAAACGTGCCTGTTCTAGTTTTGATCGAATGGGCTTTTACTGGTCATTCAAAATGTAAAACCGTATTTGCAAAAATCAGGTTACTGTCTTCTGGAATTTTATGTAAGCACCCGGTTTGTTGTACGGGTATATGCGTTTGGGCTTAACTGTACATGCACAGTAAATGTCAGGTTATGTTGACTGGAGAAAAAGACCGCTCTAATCTTGGATAATCTGCTTTCCAAACTATTTTATTATCGCGAAGTCTATTCCACATCATTTGTAGATAAATGCGGTGTACAAGCGATATTCTCCCCAGAGTGTTGAGACGGTAATTGCTTTAGTGCTGGAAGTCCTCAGTTGGTTTTTGACTTTTATGGCACCAAGGCGCGTTTGACGCATTCTTTTGTAAGATGCCCCCTCCCCCGCCTTCCTCTTGTCCCTTTagtagcaaaaaaaattcaatgcaaTACAAATGGCGAAAGGAAATGCACAGACGGTTCCCTTTCATAACCAAGAAAGTTAGAGGAAacgaaaagaaaacaaatatttaagaGACATACACACCAGAATAAAACATCCCCTCTCTTTTACATTTAAGCTTGTTGACTGACCAACCATAAATGAACATATGTGAtaatatattctttattttgACGGCTCTAAAATGTAATTCACTGTATTATTAGATTGAAATTCAAGACGTCATAAAGGTCCAAATAAACACATCTGCTGCTACACATGTGGTCTTAAGCAATGTTAAGCAAAATACATATATAGCCATCATCAAGCAAggaatattaacatttacattttttacttaCATTTGTAACAAAGACGCAGTAGAGTTTTAAACGTAATGCGAAATTCTCAGAGATTTTTCACTTGTATCATAAAGACAAACTGAGAGAAGTTACATTATAATTCAGCGTTTTGGTTTAAACAAAAGTATTAAGCCTATCAGCCTTTAAGTGTCATGCCAATGAAGATATTTTACCCCGAGTTGTAAACGCTGTTAATCGTGCGGCTAATTCAATATGGCACGTTCTGGTCCAATTTAATAATCACACTCACTGCACAAGTTGTTTGTCTGTTTCCCTGACTTACACTATTCATTGGTGCATTGATTATAATATATGTAGGTCATATCACCATTTTTATCGAAGAGAGACGAGAGTGAGCAAGCGAGGGGGCacgagcgagcgagagagagagagagagagagagagagagagagagagagagagagagactgttttCCTTAAACATTATCAACTGAAACCAGTGGGATATGAAGCTACAAGCTACATATTCCTCTGTATACAGCGCTCTCAATTGGTGGAAACTAGTCAGGTGACGTTGTCATATTGTCTTTCCTTGAGCCAAGCCTTGGCTATAACACTGGGGTTGCGCGTCTTAACCGGAGTctagaaattaaaattattgaAATCCTACTGAACTAAAAAAGAGTTTGCAAAGCAGGAAGGGGACACGCGCGCGAGTGTATGGGAGAGGAACATAGACACTTAGGCGCACAGTGAAGAAACGTGAGAGACTGAGCAAGGGGTATTAAGAAGGGAGGCAGAGTTGATGAGAGGGCGATAGGGGAAGGCATGAATTCGTATTTCGCGAACCCGTCACTATCTTGTCATTTATCCGGTGGCCAAGAGGTTTTGCCTAACATGCCACTAAACACGACCACGTATGATCCTGTCAGACATTTCTCGTCTTACGGCTCCACTGTGACCCAGAACCGGATTTACGCGTCCCCTTTCTATTCGCCACAAGACAACGTTGTGTTCGGGTCAAGCCGGGGACCGTACGAGTACGGATCTAATGTGTTCCTCCAAGACAAGGAAGTGCTTCCCAGCTGCAGGCAAACTAGCATGGGAATCAACGCTCAGAGCCACGTAGCTCAGGAGTACAGCCTGGAACACGGTCGAGGCGTTGCGCAGGAGCAAAAAGGGAACCAGATCCAGATCTACCCGTGGATGCAGCGCATGAACTCGCACAGCGgagTTGGGTACGGCTCTGACAGAAGGAGAGGTCGACAGATTTACTCCCGATACCAAACCCTGGAGCTAGAAAAGGAGTTCCACTTCAATCGCTACTTGACCAGACGCAGACGGATAGAGATTGCCAATGCTCTTTGTTTAACAGAGCGCCAAATTAAAATTTGGTTCCAGAACCGCCGCATGAAGTGGAAGAAAGAGACCAACCTGACTTCGACTGTAACTGGGACAGATTCGACTGGTGCTGCCCAGGGggaagaaaaacagagcaaTCAGGAGGAGACAGAAGAAGTTAAAAACAAAGACTaatagatttgtttttatttgtaaacgCCTGTTAAACTGCAACGTAACTACCTATAAACTCTCAGAAATGCAATTATAACTGCATGGACTGTGTATTCTGCTATACCTTCACACTCATTTCCTGATCATTATCACACAAATacgtgcagagagagagagagagagagagaaagagagagagaggtggtaTGCAGAATTATGCTAATCACTCTTTGTATTAAGAATATGTTTTGCCTCATTTTAGGCAGTTTAGATGCAATATCACAGACGCTGTTGTTCGGCAACCAGTCTTAATAGTATAGTGTTCTTTATGCTTGTAAATAGTTACTCTATGAAACAAACTGTAAACTAATTGGGTCAATGGGCTTTCTCGTTGAGTTTGCAAACAAAGTACCATTACCATTCCAAATGTGAAGGAAGTGTAGTCTATGCACATGTGTTACTTTGTTCTCGTTCAATTAGCACCAACACTGGTGGGATGATCCATGCTACCTACGTTCTTATGGATTTTAATAACTTCATCCCGTCAGTGCGTGGATGTACAAAACGCCGCTGTACTGGCTAAATATTTACTGTTCAGCTAATTTCATACCAATTCAACACACACTTATAGTCATGCTTATAAAGTTGTcttaaagtgaataaaaactGCTTTGAAAATGAAGATATTCATTGTTTTG

Function

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0007275 multicellular organism 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

KEGG:

id description
K09306 HOX_6; homeobox protein HoxA/B/C6

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU305574 lncRNA upstream 8120 20369995 ~ 20386813 (+) True G258097
TU305577 lncRNA upstream 15599 20369995 ~ 20379334 (+) False G258097
TU305179 lncRNA upstream 285707 20108390 ~ 20109226 (+) False G257803
TU305180 lncRNA upstream 285707 20108390 ~ 20109226 (+) True G257803
TU305178 lncRNA upstream 290893 20101008 ~ 20104040 (+) True G257802
TU305640 lncRNA downstream 169046 20567790 ~ 20576789 (+) True G258156
TU305646 lncRNA downstream 212797 20611541 ~ 20657067 (+) True G258162
TU305792 lncRNA downstream 264938 20663682 ~ 20680938 (+) True G258273
TU305795 lncRNA downstream 283626 20682370 ~ 20756538 (+) False G258275
XR_004579728.1 lncRNA downstream 298241 20696985 ~ 20699668 (+) True LOC117599265
XM_034311738.1 mRNA upstream 8105 20370096 ~ 20386828 (+) True hoxc8a
XM_034311739.1 mRNA upstream 8105 20370096 ~ 20386828 (+) False hoxc8a
XM_026920559.2 mRNA upstream 8105 20383180 ~ 20386828 (+) False hoxc8a
XM_026920563.2 mRNA upstream 14903 20377228 ~ 20380030 (+) True hoxc9a
XM_026920557.2 mRNA upstream 24917 20366457 ~ 20370016 (+) True hoxc10a
XM_026920561.2 mRNA downstream 952 20399696 ~ 20402543 (+) True hoxc5a
XM_034311741.1 mRNA downstream 4557 20403301 ~ 20431053 (+) False hoxc3a
XM_026920558.2 mRNA downstream 12629 20411373 ~ 20413861 (+) True hoxc4a
XM_034311742.1 mRNA downstream 16939 20415683 ~ 20431053 (+) False hoxc3a
XM_026921098.2 mRNA downstream 40510 20439254 ~ 20446982 (+) True hoxc1a
TU304946 other upstream 916038 19478302 ~ 19478895 (+) True G257622
trnae-cuc_34 other upstream 1361945 19032917 ~ 19032988 (+) True trnae-cuc_34
TU304341 other upstream 1483219 18879568 ~ 18911714 (+) False fmnl3
XR_004579712.1 other upstream 3273992 17071136 ~ 17120941 (+) False itga5
TU303060 other upstream 3886553 16508025 ~ 16508380 (+) True G256046
XR_003403172.2 other downstream 111500 20510244 ~ 20514195 (+) False LOC113530729
XR_004579743.1 other downstream 504361 20903105 ~ 20907250 (+) False ubxn10
TU305940 other downstream 504403 20903147 ~ 20905073 (+) False ubxn10
TU306101 other downstream 829576 21228320 ~ 21230871 (+) False si:ch73-290k24.5
TU306357 other downstream 1139510 21538254 ~ 21542254 (+) False LOC117599233

Expression Profile