RNA id: XM_039799367.1


Basic Information

Item Value
RNA id XM_039799367.1
length 2758
RNA type mRNA
GC content 0.42
exon number 2
gene id hoxc12a
representative True

Chromosome Information

Item Value
chromosome id NC_053116.1
NCBI id CM020913.1
chromosome length 44101041
location 20895268 ~ 20899135 (-)
genome version GENO_Pfluv_1.0_2020_eurasian_perch_Genome
species eurasian perch
(Perca fluviatilis)

Sequence

TGTTGGTCGGGCCCGCGGAAATGGGCGAGCATAATCTCCTTAATCCAGGGTTTGTGGGACCTTTGGTAAACATCCACACTGGAGACACATTTTACTTTCCGAATTTTAGAGCCTCAGGGGGACAACTGGCGGGGCTACCGTCGCTCTCCTACCCGAGAAGGGACAATGTTTGCTCCCTCCCGTGGAATCCTTCGGAGCCGTGCAATGGATACTCTCAATCCTACTTTAGCAGCCCCGTGTCTATTAACCCTTCTTTCAATCGGTCGTGCGAAATTAGCAGACCAGAAGAGGGTAAATGTTATTATAACAACGGCAACGGGAACAGGGAGACCTGTTCAGGTGGCAGCAGCCTCAAACGAGAGGATAGGGCGAGAGACACATCATCATTAACATCTGACCACGGGATGCACAGTGGAATTGGCAGCACAGCCACCTTCTCCAAATATGATTATGGGACCGAGCAGCTAACGCAAGACCCGCCATCCTGTCAGTCAATGGAGTCCGACTCCAGCTCCTCTCTGCTCAACGAGGGCAGCAAGCCTCCATCCAGCGACACACAGACCCTGGTGTCACCGGGAAGCCATTCAAGCAACATAGCCGCAGGAGgtGCCCCGTGGTACCCGATGCACACTCGGACCAGAAAGAAACGTAAACCGTATTCCAAACTTCAGCTGGCTGAGCTAGAGGGTGAATTCATGCTGAATGAGTTCATCACCAGGCAGCGGCGGAGGGAGCTCTCCGACCGTCTGAACCTCAGCGACCAACAAGTGAAGATCTGGTTCCAGAACCGcaggatgaagaagaagagactCATGCTGAGGGAGCAAGCCTTGGCCTACTTTTAGAGATGCGGCAGAAGGTGAATCGATGGGCAGTAAAAGCCAAGCCTTCTGCGTTCCCTTAGGTCTTATTTCAATGCATGCACTCATATATCAATCTTTTTGACATTGCAGGCAATTATTACAACATTTtctgatattatttttttgaaaggTGCGGGCTGCACAAGCCCAAAACAAGCCACTATCTGACATTCAATGCTATAGTCAACATGACAGTAAGACTGCCTCTATGTTTGGTATAATCGCACAAAAACTGTGAgaatgtgtatttctgtgtacgATGCATCTCTTGGTTTTTCCTTATTTGTCAAGAGACGTGTAAGCCACGCGAAAAATGCTGTCGATGCAATAGTTCATCTTGGGATGACCCATAATGACAACATCCTTTGTGTTCCATTTTTCGTCAGAGAAAGTGAGGAGGGAGCGGGGCCACTAggtaaaatctaaaaaaaattagGCCTAAAAATAGCAGTGAAGTCAGAAAGGCAGAGAAGCCTGGTTTGATCCGCATCCGCGCACTCATTTATCTGAGGTTATGAACTGATAAAGAAGAATCTCCCTCCGGGTTGCTTAAAACTTCCACAGCCATAATTTGTTGGGAAAGAGGAACATCATCGTTATCTCCTTTTCACAGTTTTTGCCACTCTTTGTGGGCACGTTCACGGTCACGGACAGGAAGTCTGTGAGTCTGCATGAGGAGAGGGAGGACTAAAACCGCAATGTAATCCATATCGATATCTTTATGACTGCATTGGAAAAAATGAATTGCCATGTCTTTGTTCATGTGCTAACACGTTTCTAAAGGTATTTTTCTTACTTGTATTACCTTTCAACTTGTCTTTACAACAACCACAGAATCCTGCATGAGTTGCATTTTTTTAGTTGAGTGAGATCACCGTTTGAATACGGTTTTGAGCTGCTATTAAAGTCCACGTCCAGATCGTGCCCGTTAAAAATAGTGTATTCAACAATAAACTCGCCAGGATCTGTAATGGAAATATTCACCAGtataagtaggctacatttttagGCCAACTTGGTTAAACAAGGCTGCCGCCTAAAGTTGCAACGGAGGAAGGATGATACGTTTTTAGGCCTGAAAGAGCATTTTCTTAAACTTGGTGctcataataaaaataaatatgtagaaatTTAGAAAAGTTAATCATAGGCCTATATGTGCTCCCTTAATTCAGTGCGAATGCATCATCTGTCATGTATAATGAGTAAGCTATAGCAGTGAAATGTATTTGCAGCATGTTATTGATGTGAAATAGCTATAAGTCATGTTCTGCGGGCCACTTTTTCTATaggtgatttttttattattattattttttgaacAAATCAAATGCGAACACAACCCTAAACATTTTTGACACAGACGTCTACAaagaatgtattattattattattattattattattattattatttttattattaggaTGGAAGGATGGAGAGCCTATCTGGCTACTTAATGTACTTGCTCCTTGCAACGTGCTTAATGTTTTCCCTTTCCTTACCTTGTACTGGTGTATACCTTTGTAAAATTAAATTACATATGTTACTATTCGCATCCTGTTTGAGGATCCCTTATCGCTAATAGTGCGTTTTGTTATTGATCGTCTTGTACAATATAGCATTCCATATAGCCTATTTGTGGTTGTAAGGGTTGGaaatgtaggcctattataTCATACTGCCAAGGAGGTAAGAAATGGTATTCAAGAAGTTTTACCATACATAACATTTAAAGAAACCCTGTTTCAGTGTAATAGTTGTTTGTTATCGTTTTTATTTCGTCCCTCATCGCATTCCCTTCTTTGCGCTTGTAAGGATTGCTACGTTGTCTTGTAAAAGTAATACTGATATGAATGTATAAGGTCTTCAATAAACAGAATATTGAAACGTT

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
K09297 HOX_12; homeobox protein HoxC/D12

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU68915 lncRNA downstream 169367 20725627 ~ 20725901 (-) True G51577
TU68912 lncRNA downstream 172270 20722650 ~ 20722998 (-) True G51574
TU68904 lncRNA downstream 231691 20662353 ~ 20663577 (-) True LOC120558476
XR_005639129.1 lncRNA downstream 231692 20662428 ~ 20663576 (-) False LOC120558476
TU68877 lncRNA downstream 453461 20441496 ~ 20441807 (-) True G51544
TU68929 lncRNA upstream 21560 20920695 ~ 20952782 (-) False G51589
TU68967 lncRNA upstream 125998 21025133 ~ 21031699 (-) True G51614
TU68973 lncRNA upstream 137947 21037082 ~ 21041944 (-) True G51620
TU68958 lncRNA upstream 146914 21046049 ~ 21048786 (-) True G51606
TU69031 lncRNA upstream 267587 21166722 ~ 21167748 (-) True G51673
XM_039799364.1 mRNA downstream 9016 20882028 ~ 20886252 (-) True hoxc11a
XM_039799363.1 mRNA downstream 19987 20851072 ~ 20875281 (-) False LOC120558386
XM_039799362.1 mRNA downstream 19987 20862507 ~ 20875281 (-) False LOC120558386
XM_039799370.1 mRNA downstream 30945 20861762 ~ 20864323 (-) True hoxc9a
XM_039799371.1 mRNA downstream 37032 20854604 ~ 20858236 (-) True hoxc8a
XM_039799365.1 mRNA upstream 6921 20906056 ~ 20910417 (-) True hoxc13a
XM_039799485.1 mRNA upstream 64611 20963746 ~ 21006268 (-) True rarga
XM_039799486.1 mRNA upstream 64611 20963746 ~ 20983430 (-) False rarga
XM_039799487.1 mRNA upstream 64611 20963746 ~ 20982399 (-) False rarga
XM_039800109.1 mRNA upstream 149709 21048844 ~ 21066026 (-) False rbms2b
unassigned_transcript_227 other downstream 574430 20320767 ~ 20320838 (-) True trnae-uuc_54
XR_005639385.1 other downstream 1188468 19706679 ~ 19706800 (-) True LOC120559930
XR_005639383.1 other downstream 1193817 19701330 ~ 19701451 (-) True LOC120559928
XR_005639384.1 other downstream 1195374 19699773 ~ 19699894 (-) True LOC120559929
TU68271 other downstream 2008515 18880365 ~ 18886753 (-) False LOC120558627
XR_005639109.1 other upstream 21564 20920699 ~ 20952518 (-) False LOC120558386
XR_005639107.1 other upstream 21564 20920699 ~ 20952518 (-) False LOC120558386
XR_005639111.1 other upstream 21564 20920699 ~ 20952009 (-) False LOC120558386
XR_005639338.1 other upstream 268836 21167971 ~ 21199043 (-) True fmnl3
XR_005639356.1 other upstream 1074566 21973701 ~ 22015043 (-) False si:dkey-151g10.3

Expression Profile