RNA id: XM_026920252.2


Basic Information

Item Value
RNA id XM_026920252.2
length 2971
RNA type mRNA
GC content 0.40
exon number 2
gene id hoxc12a
representative True

Chromosome Information

Item Value
chromosome id NC_047610.1
NCBI id CM018556.1
chromosome length 25111544
location 20347159 ~ 20350929 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

GGAACCTGCAGATATAGGAAAGTGAAAAACAAGAGTCTACATTTTAATACGGaattttatagtatttttaaaaagcatataaAGACCCGTAACACAGaagttaatgttttgttttgtctaaaATAGACCAAGTGGGTGGTACCTTCTGGAGTTCGAGTAAGCTCCGCCACGTGACGTGGAGATGACCAATCAGGTGCATCTCCAGGTTTAACTACGTTAAATGTCAGATTGCAATAAACTAGAAGCTGTTGGTCAGGCCCGCGGAAATGGGCGAGCATAATCTCCTTAATCCTGGGTTTGTGGGACCTTTGGTAAACATCCACACTGGAGATACGTTTTACTTCCCGAATTTTAGAGCCTCAGGGGGACAACTGGCGGGGCTACCGTCTCTCTCGTACCCAAGAAGGGACAATGTGTGCTCCCTCCCGTGGAATCCATCGGAGTCGTGCAATGGATATCCTCAGTCCTACTTTGGTAGCCCTCTGTCCATTAATCCCTCTTTCAACCGATCTTGTGCTGAAACAGCCCGACCGGACGAGAAATGTTATTATGGCGGCAGCGGCGGCAACAGAGAGGCTTGCTCGGACGGCACAGTCAGCCTAAAACGAGAAGAGAGAACATCAGTATCATCAGATCACGGGGTGCACAATGGGATGGGCAACAGTAGTACCTACACCAAGTATGACTATGGCACCGAACATCTGACCCCAAACCCGCCGTCCTGTCAGTCTCTCGAATCCGATTCCAGCTCCTCAGTGCTCAACGATGGAGGAAAAAGCTCGGCAAGCGATACACAGACCCTGATATCGCCCTCAAATCACACGAGCAATATCTCAACAGGAGGAGGTGCCCCTTGGTATCCGATGCACACCCGGACTCGCAAGAAACGAAAGCCCTATTCTAAACTGCAGCTGGCTGAGCTGGAGGGCGAGTTCATGCTAAACGAATTCATCACTCGGCAACGGCGGAGGGAGTTGTCAGACCGGCTGAACCTTAGTGACCAACAGGTTAAGATCTGGTTTCAGAATCggagaatgaagaagaagagactGTTGCTGAGGGAACAGGCCTTAACCTTCTTTTAAGCAGTCGTTTATTAGTAGCACCACACCAATCATCCACTGTGGGTAATATTAAAACAGCTCAGTATTATTCTCAatagtctttatttttttggtttaatatttatgcatttttgcGTAATAGCAAATTCATAAGAAAGCAGAAATTATTTCAGGGAAGGCGACCAAATgttaacaggaaaaaaagctCTGTTGATATTAcactttgtttttgtaatatatgTATTAAAGTGGTTCAGAAAATGTATGTTAACATGCGTTATTTGAAAGAGACCTGGCCACTTTTGCTCTCCACTTCGAATTGCAATATATTGCAAGTTATATAGGATATTTACTCAAAGTTAAGCTGTGAGATATTCAATCAAAGCGAAAGTATATGCCTGTATTTAACTGGCAATTAAACATGCTTTGTGAGATGTACTGTCAATAGTATCAGCTATTTATTACTTcgtaaaattacaaaaattctGCAGTATCTACTTGCGCATTGTTCAGAAGTAATTTTACTCCATACTCCATGGAAACAAATAATTAGCGAGGCCCTAAATGAAGAGCGCTAACGGTTGCTGCCCTTAATAGCCAccgcactgcaaaaaaaaaaaaacttaatattttcaCGAACCTTACTACTTCAGTGGGCATAATCCTTAATGCTGATCTCTGCAACCAGGAAGGGGAAGAAGCCTAAAAACAGTGTGGAGCGGAAAATCATGAAAACCATATCTCGCGCCACGTGTTCTCAGGCACGTTCACGGTCATGGGCACAAAGTCAGTCAACTAGCTGAGCTTCAGCAGGTCTGAGAGACTTCAAAACCATACCGCAGCTGGAATAAATTCTGCCAGGTGATCGATGCCATGTTGTCTCTCTCAACTTCATTGCTTTTAGGCACGACCTGAAGTCAGACTTGGTAAAGACTGGTATTAAGACTGATATAACTGTGCTGGTATAAGTCTGGTATTACTATGTTGGTATGTCTGTGTATTTTGTAACACCGTGTTGTTACTTCTACATTACTCCTATTGATAAGTTTATTTATAATCCTTATAATAAAGGTCGTGCCACAGACTTGGCACGGAGAATAATTTCTTTCATAATTGCATGTCCCTTGATCCAAGTTTAGAAATAAGTAGGCCAACTTAATTAAGTCTCTAAAATGCTTTTGGGAGGGAAGTGCATGATTCATTGTCAGTTACTATAGTCTACCTTGGTGAAGGGTAAAAGATAAAGTATCTGATCAGTCTTAAGAACACATCACACGATGCTAAAAACATATTCCCAATTCCCTATAAGCGAAGGCATCCTTTTATTAGAAGATATTGCTTCATATCAAGAAATCTGATAAGAATATAATTTCTTGATTTCTTGATATTACGCAATGCATATATTGCATGTTATTTATGGTACTAGTTAGCGCCTCTTACGTTTCAGTGTTGagcatgtattattttaaagacactttatcaaaagagaaaaggaatgTCTTAATCTTGTGAAAAAAGAAGTGGTTAGAATCGTACCGTGATATTTAAGCTTTAAAACAAACtattgcaaataataataataataataataataataataataatactaataataataataatgataataataagccACTTCTTCATCGGTGctaccttttccttttttcgGGTTGTTATGCAACTCATATTTTTGTAGATCATTTCTGCATTGAAACCTTCTTTCGTGAATCTGTGGAAAATGTGTCATCACATATTTAACGCTACTTTCCATTCtcccatttttctatttttatgtcgCATTCCTCTTGAGATCTAAGACTGTCCTGTACATAACGCTGCGAATTCTTGAATGTATTGATGTATGTGTAGCCCAAGGTTTCTGTTAAATAAAGTCTATAAACTTC

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

KEGG:

id description
K09297 HOX_12; homeobox protein HoxC/D12

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU305179 lncRNA upstream 237933 20108390 ~ 20109226 (+) False G257803
TU305180 lncRNA upstream 237933 20108390 ~ 20109226 (+) True G257803
TU305178 lncRNA upstream 243119 20101008 ~ 20104040 (+) True G257802
TU305196 lncRNA upstream 247661 20099230 ~ 20099498 (+) True G257814
TU305195 lncRNA upstream 281151 20065477 ~ 20066008 (+) True G257813
TU305574 lncRNA downstream 19066 20369995 ~ 20386813 (+) True G258097
TU305577 lncRNA downstream 19066 20369995 ~ 20379334 (+) False G258097
TU305640 lncRNA downstream 216861 20567790 ~ 20576789 (+) True G258156
TU305646 lncRNA downstream 260612 20611541 ~ 20657067 (+) True G258162
TU305792 lncRNA downstream 312753 20663682 ~ 20680938 (+) True G258273
XM_026920340.2 mRNA upstream 6612 20336971 ~ 20340547 (+) True hoxc13a
XM_026921439.2 mRNA upstream 78372 20232088 ~ 20268787 (+) True rarga
XM_026921440.2 mRNA upstream 78372 20252164 ~ 20268787 (+) False rarga
XM_026921229.2 mRNA upstream 148507 20183237 ~ 20198652 (+) True gdap1l1
XM_026921335.2 mRNA upstream 192063 20152246 ~ 20155096 (+) True LOC113530927
XM_026920335.2 mRNA downstream 7243 20358172 ~ 20361279 (+) True hoxc11a
XM_026920557.2 mRNA downstream 15528 20366457 ~ 20370016 (+) True hoxc10a
XM_034311738.1 mRNA downstream 19167 20370096 ~ 20386828 (+) True hoxc8a
XM_034311739.1 mRNA downstream 19167 20370096 ~ 20386828 (+) False hoxc8a
XM_026920563.2 mRNA downstream 26299 20377228 ~ 20380030 (+) True hoxc9a
TU304946 other upstream 868264 19478302 ~ 19478895 (+) True G257622
trnae-cuc_34 other upstream 1314171 19032917 ~ 19032988 (+) True trnae-cuc_34
TU304341 other upstream 1435445 18879568 ~ 18911714 (+) False fmnl3
XR_004579712.1 other upstream 3226218 17071136 ~ 17120941 (+) False itga5
TU303060 other upstream 3838779 16508025 ~ 16508380 (+) True G256046
TU305571 other downstream 39880 20390809 ~ 20398714 (+) True G258096
XR_003403172.2 other downstream 159315 20510244 ~ 20514195 (+) False LOC113530729
XR_004579743.1 other downstream 552176 20903105 ~ 20907250 (+) False ubxn10
TU305940 other downstream 552218 20903147 ~ 20905073 (+) False ubxn10
TU306101 other downstream 877391 21228320 ~ 21230871 (+) False si:ch73-290k24.5

Expression Profile