RNA id: XM_034311741.1


Basic Information

Item Value
RNA id XM_034311741.1
length 2825
RNA type mRNA
GC content 0.41
exon number 4
gene id hoxc3a
representative False

Chromosome Information

Item Value
chromosome id NC_047610.1
NCBI id CM018556.1
chromosome length 25111544
location 20389157 ~ 20431053 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

TAACTGTCCTCAATCGCAGCTGTTGGCTGGTCGTATCTTCGAAAGGGAGAGCGGCTTTAGGGCGGTCAGTACGCCTTTACTCGTGTCAGACTACGCGGTTCGGCAAAACTCGCCTCTCGTAAATGGATCCCTGGCGATCGCAGttaatcactgctgatgatacTAACAGGAGAGCATTATGGAGACGGAGATGGTGTCTTCCTCCGGCAAGAAGTTGCTCGCAGACACTTTGCAACTCGGGGTTCATCCACGACGCAACGCTATTGGCTATTGGGCCGTCACGTGACTCCAGGCTTCACCCGCAGCTCCTAGGCAATTAAATGCCGTGAGGGCAGTTCTGCACTCGACCTTCACGCGCTCGGAGCAGGTCACGCTGAAGGCCACACGTGGGATTCGCAAGACTATAGTTTTCTACAGAAACCGCACGCGACGTGTGCTATTGACAGCCGAATCACGAGTGGGATCCGACCTCACTGCATGAACCAGGTGGACCAAAATAAGGGCAATGACGTGTCAGTGAAAATTAATGGAACAAGCactaaaggcttcttcttcaaGAATGTCTACCCTTGGATGAGAGAGACGCAGTCTGCCCCTGCAAGTCATGATACACCCAGCTCCTGCCAATCAGGGGTATCACCGTATAACAGTGGTGAGCTGGCTTCTCCAGAGACAGCAAGAAGGAATGACAGCAGCTCCAGCAGGAAACGTATACGCACTTCTTTTACCTCTTCCCAGCTGCTGGAGCTTGAGAAAGAGTTCCACTTCAGTGCTTACTTGTGTCGCCCAAGGCGCCTTGAGATGGCGTCGCTGCTCAAACTCACTGATCGACAGATTAAAATCTGGTTCCAAAACCGCCGCATGAAGTACAAGAAGGACCACAAGGGAAAGGCAGTGGTTTGGCCATCCTATTTAAGTGTCCCATCTTCAGGAGAAGGTAGTAGTGGTGCAATGGACATTACAGCTACAGCCTCACACAACCTCCAGTACatcagtcagccaatcatgagctGCACTCAAAGCGGTTATGGAGACACTATGTACAGAGACTGGTTCCTGTTTACAAAGTCAGCTACACCTGTTAAAGACACTGCATTAGACCTCAGCAATACCCCGCAACCTGTGCCCAGACTTGATACTTCAAATTTGGTCTCAGGGCATGACTTCTGTTTGCACCAGCCAGGTGAAGGCTGTATCCTAGCACCTCCTGGACTCTCATACATGTGACTGTTCCTCCATGATCAGCCATTTCTTCAGCTCCAGATCTTTTTAGCACTTTGCCTATGTTTATATCTCATTTAGTcttaaaaatacaagaaaattaCCAAGCAGATCATGTGAAAAGATAAAGTGGGTTTAGCagttacaatgttttttttgtaactttattCATATAGAATCTAACCAAATCACTCTTGCTTGCTAGAATTCCTACAGATTTCACAAGAGATTGGATTGTCATGCCATACTCTGGCACACAGCTCCACAGCTGCTATCACTTTGAGAAGAGGCAGGATTTGTTGCCCTCAGAAGCTGACTTACAGGCAGATCATTGACTTAAAAGAGCTGGAGAGCCAGGTTTACTCTCACGGGCAAAAGGCCAGGGAGAATTACATTACGTTATCAGCCAGTATGCAGTAAAGCTGGGAGAGTTTCCTCTGTGGATAAGTTGTAGCAGGCTCTGTGAAAAGTAAAGAGATTTATTAAACATGGACATGAGCCCACTTCTGAGAATTTATCTACCGAGCTCAGATtggttgggggaaaaaagcacaaGAATCCTCCAAACATTAGCAAGAgcatttgttgtttttaactttaatgtgaaatatcaGCTGGGGTAGAATAAGTACAGAGAAACTGTACTTGAGTAAAAGTGTCAAAATCCTACTCACTTAAAAGTGTGGACATGGAGTGAAAGTATCTACAGTTAAACATGctcaagtatttttttttttttgagaatgttcattttctttatcaAATGGCAAACTGTTGTCATGCTGTCATcctgaatgaatcatttgtaaatCCAAGAGAGCACCACTCAAAGACCAATTAGCACAACTTTGTGAAAGTTTCATTTGATATTGATGTGAGTTTGTTTGGAATCAGTGTAAATTGACCTTAGTAAGAGTCCACATATTCAGCTTAATAACACTTGATTAAAGTGCGAATATTCTAAAATAGTACTGAAGTACAGCACCAAAGTACAATTACTACAAGTATTTTCTGCCCCTGAATATCAGAACATAATGCATTGTCTTAAGCATGTGTCAAACCATAtttgcacaaaaatatatagGACAAATTATATTggtttattttactattttgcttcataaacatttacagaatgtTCCCTCAGGagattaaatattcaaatagtCAAACAAGCATGTAACcactttgtttatttcagtaCTTATTTCTTATTTGGTTATTAAGCAAACCATGCTGAATAGATACTCGTTGAAGAAAGCACACATTTAGGTATAGTGAAACAGTTTGCGttgatttctgtattttgtattcTGTGTGCTGTAATAACTTGGTAATTACGCAGTTAATACATACTGCAGTTATTAGCAGCTAttgaacatattttatgaaaaatgatgatgaaaaatcTGAAAAGGAATTGCCTTGAGCATGCAGTACATGTCAGATTGGAAGAAATATGCTCTGTCAGTTGTTATTCTTTGTCCTTATAGATTTTAATCATcaatttaaatagaaaaaacatGCTTTTCATTCTGtgttcattgtttgttttgtgtcaaTTGCATTTGAATAAACTGAAATaatgcatgtttaaaaaaaaa

Function

GO:

id name namespace
GO:0003677 DNA binding molecular_function

KEGG: NA

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU305574 lncRNA upstream 16488 20369995 ~ 20386813 (+) True G258097
TU305577 lncRNA upstream 23967 20369995 ~ 20379334 (+) False G258097
TU305179 lncRNA upstream 294075 20108390 ~ 20109226 (+) False G257803
TU305180 lncRNA upstream 294075 20108390 ~ 20109226 (+) True G257803
TU305178 lncRNA upstream 299261 20101008 ~ 20104040 (+) True G257802
TU305640 lncRNA downstream 136737 20567790 ~ 20576789 (+) True G258156
TU305646 lncRNA downstream 180488 20611541 ~ 20657067 (+) True G258162
TU305792 lncRNA downstream 232629 20663682 ~ 20680938 (+) True G258273
TU305795 lncRNA downstream 251317 20682370 ~ 20756538 (+) False G258275
XR_004579728.1 lncRNA downstream 265932 20696985 ~ 20699668 (+) True LOC117599265
XM_026920561.2 mRNA upstream 758 20399696 ~ 20402543 (+) True hoxc5a
XM_026920560.2 mRNA upstream 4557 20394933 ~ 20398744 (+) True hoxc6a
XM_034311738.1 mRNA upstream 16473 20370096 ~ 20386828 (+) True hoxc8a
XM_026921098.2 mRNA downstream 8201 20439254 ~ 20446982 (+) True hoxc1a
XM_026920987.2 mRNA downstream 79191 20510244 ~ 20513378 (+) True LOC113530729
XM_026921356.2 mRNA downstream 106653 20537706 ~ 20544797 (+) True copz1
XM_034311779.1 mRNA downstream 155114 20586167 ~ 20610713 (+) True lima1a
XM_026920825.2 mRNA downstream 155114 20586167 ~ 20610713 (+) False lima1a
TU305571 other upstream 4587 20390809 ~ 20398714 (+) True G258096
TU304946 other upstream 924406 19478302 ~ 19478895 (+) True G257622
trnae-cuc_34 other upstream 1370313 19032917 ~ 19032988 (+) True trnae-cuc_34
TU304341 other upstream 1491587 18879568 ~ 18911714 (+) False fmnl3
XR_004579712.1 other upstream 3282360 17071136 ~ 17120941 (+) False itga5
XR_003403172.2 other downstream 79191 20510244 ~ 20514195 (+) False LOC113530729
XR_004579743.1 other downstream 472052 20903105 ~ 20907250 (+) False ubxn10
TU305940 other downstream 472094 20903147 ~ 20905073 (+) False ubxn10
TU306101 other downstream 797267 21228320 ~ 21230871 (+) False si:ch73-290k24.5
TU306357 other downstream 1107201 21538254 ~ 21542254 (+) False LOC117599233

Expression Profile