RNA id: XM_026941862.2


Basic Information

Item Value
RNA id XM_026941862.2
length 1569
RNA type mRNA
GC content 0.47
exon number 2
gene id msx3
representative True

Chromosome Information

Item Value
chromosome id NC_047597.1
NCBI id CM018543.1
chromosome length 33776708
location 12909723 ~ 12911614 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

TCAATAAACCACCGCAGCAAGACAAGTATGATTGACCACGCACATTTCTTTCAAAATCACTTTGACGTCCGTCCCTAAGAAAGTTTGCTGGCCAATCAGAAAGCAGACCTGGGGAGTCATGTGAGCAAACTCCAGCGCCGATTGGAGGGCGGCAAAGAAGAAAGCGAACTTTGGGGAGTTTTATAGCTGGGAGAGCTTTGGGCTATACGAGAGAGAAGGGATTGTCGCAGAGACTCGGCGAATGACAGACAGGAAAAGAAGCCAGGACGAGTTAAACTGAGAGGGCCTGGCATTTGGAAGTTGTATGGCCCCTTTACCCTCCACAATGAGCTCTGTTCAAGGACCGCTTTCCCAAGAAGGTGAAGCACAGAAGCGCGCAAACGCGGACGCAGAAGAGGCTGAGAGCACCGACACAGCGGCGGCCAAAGGATGTAAAAACAAGGCGTTCAGTCTTCCCTTTAGCGTGGAGTCTCTAATCTCGGACAGAGTTACTTCCAGGACTTCATATTCCGCATCCGACTCAGGGCTTATATCCCCTTCCGAGGAGCGATCACAGCTCTCACCTATGGCTCTTTACGCAGACAGGAAACTGCCGCTGGAGAGCGTCTCAAACTTAGCTGTGGGGAAAAGAGGAGACTCTGAGGAGAGACACGAGAAGGGACAGGGAGGATGGTTTCAGACTCCCTCCTACGCCTCTCCGCCAAgaCACTCGAGTCCGTCTCCATGCGCACTCCGAAAACACAAGAACAACAGAAAACCCAGGACCCCGTTCACCACCTCCCAGCTGCTAGCTTTAGAGAGAAAGTTTCGCCAGAAGCAGTACCTCTCCATTGCAGAAAGAGCGGAGTTTTCCAATTCACTCAATCTGACAGAGACACAAGTCAAGATATGGTTCCAGAACAGGAGAGCGAAAGCAAAGAGACTTCAAGAAGCAGAGTTGGAGAAACTGAAACTGGCCTCGAAGCCTCTGTTACCGGCGTTCGCCTTCCCCTTCCCGCTGGGAGCGCACGTGCCTTCTCCCGGGCTGTACGCAGCCTCGAGCTCGTTCCCGCGGCCCTCGCTGCCCGTGCCGGGCCTGTTCGGAGGACCTGTTACCTATGGGATGTATTACTTGtcttaaatgtgttcagtgtcATTAACTGCaagactgctgtttttttttgtttttgttttcttaatttttgCCAGTCATAAACGGACAAGTAAAATGTCTGAGTATGAACTTGAAAGCAGACAAACTGGCGCGAGCCTGTACACACATTTAAGTCTGAGAGCGACaattaagaaatattaaaattatatatagaaAGGTTTCCGTGGTGCCCTCAACATAAACAACCTGTGGCTTATAGAGAATACTATTAACCCCTAAAAACCAGTCAAACCGTCAGGTCTGTAAATCAGCAGCAAACTCGTTTTCATTAAAAGTCATCTTTGGGGAAATCAGAGTTTCAGATGAAGCCTGcaatttaacatttcatttcgGAACAATATATAGActaaatgtttatatacaaattatatatatatatatatatatatatatatatatatatatatatatatata

Function

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0043049 otic placode formation 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
K09341 MSX; homeobox protein MSX

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU53620 lncRNA upstream 39500 12870003 ~ 12870223 (+) True G45376
TU53604 lncRNA upstream 88334 12820856 ~ 12821389 (+) True G45360
TU53595 lncRNA upstream 98473 12810919 ~ 12811250 (+) True G45351
XR_004577841.1 lncRNA upstream 170497 12733432 ~ 12739226 (+) True LOC117596851
TU53325 lncRNA upstream 235100 12674408 ~ 12674623 (+) True G45170
TU53723 lncRNA downstream 48476 12960090 ~ 13031136 (+) True G45453
TU53729 lncRNA downstream 100332 13011946 ~ 13017600 (+) True G45459
TU53744 lncRNA downstream 140626 13052240 ~ 13052529 (+) True G45473
TU53786 lncRNA downstream 184057 13095671 ~ 13095881 (+) True G45508
TU53888 lncRNA downstream 400063 13311677 ~ 13312080 (+) True G45592
XM_026944741.2 mRNA upstream 34738 12871072 ~ 12874985 (+) False fuom
XM_026944749.2 mRNA upstream 34738 12871306 ~ 12874985 (+) True fuom
XM_026932482.2 mRNA upstream 41271 12863910 ~ 12868452 (+) True echs1
XM_026942309.2 mRNA upstream 47755 12855001 ~ 12861968 (+) True lgalslb
XM_026945649.2 mRNA upstream 65049 12832038 ~ 12844674 (+) False sertad2b
XM_026941541.2 mRNA downstream 8882 12920496 ~ 12929054 (+) True adam8a
XM_026941547.2 mRNA downstream 8882 12920496 ~ 12929054 (+) False adam8a
XM_034302606.1 mRNA downstream 17945 12929559 ~ 12937302 (+) True spef1
XM_034302748.1 mRNA downstream 45542 12957156 ~ 12981378 (+) False cfap43
XM_026933492.2 mRNA downstream 45542 12957156 ~ 12976678 (+) False cfap43
trnat-ugu other upstream 241837 12667814 ~ 12667886 (+) True trnat-ugu
TU53286 other upstream 266528 12639836 ~ 12643195 (+) False LOC117596823
trnay-gua other upstream 273317 12636320 ~ 12636406 (+) True trnay-gua
XR_004577785.1 other upstream 1143309 11745749 ~ 11766414 (+) False LOC113544122
trnag-gcc other upstream 1202718 11706935 ~ 11707005 (+) True trnag-gcc
XR_004577802.1 other downstream 17945 12929559 ~ 12936802 (+) False spef1
XR_004577803.1 other downstream 17945 12929559 ~ 12936802 (+) False spef1
XR_003404144.2 other downstream 70792 12982406 ~ 12999962 (+) False col17a1b
TU53738 other downstream 120665 13032279 ~ 13033248 (+) False si:ch211-223p8.8
TU54033 other downstream 586478 13498092 ~ 13501046 (+) False pcbd1

Expression Profile