RNA id: XM_026939496.2


Basic Information

Item Value
RNA id XM_026939496.2
length 4881
RNA type mRNA
GC content 0.47
exon number 10
gene id msh6
representative True

Chromosome Information

Item Value
chromosome id NC_047597.1
NCBI id CM018543.1
chromosome length 33776708
location 25494676 ~ 25504756 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

CAGGACCCGCCCACTTCCTCTTCGCACTTTTCCCGCGAAAGGTTATCCGCACAGCCTGCGTGCGTGAGAAGCAGCTTAGCATTGCAAACATCAACTTTGTGCAGCTAGTCATGGCAAAGCAAAGTTCCATCTTTAATTTCTTTACAAAGTCGCCGCCAGCCGTCGCGAAAACAAAATCTAATCCGTCTCCAACCGAAGCAGATTTGCCTTCTTCAGTTTCCAAATCCAGCAGTTCCCCCAAGGAGGAAGCTAAACAAGCAGCCCAGAACAGCAAGAAGGCTGCGGAAAAACCCCGCAAGACTCAGACTAAAGGCGGTCATGGCAGACCTTCTGGACAAAGAGCTACGGATACAAATCAGAGCTCTTCATTCTCTCTCCATGCGGGTGACCTGGTATGGGCAAAACTAGAAGGACACCCATGGTGGCCCTGCATGATAGTGCCCCACCCGTTGAGTGGGCAGCAGATGAGGGGCAGAGGCCAAGATCAGAGAGTGCATGTCCATTTTTTTGATGAGCCAGCAACGAGGGGTTGGGTCAGAAAGAATTACATACGAGAATATAAAGGTTCAGAGAGTGCTGATGCCAAAACAGGTGGTTTGTTCTTCAGTGGCAAGCCTGTGATTCGCAGGGCAATGGAGTTGGCAGACCGCGTGCTGCAGGACAGTCCTGAAAAGAGACTAAAGTTGCCGATATGTATGGATGCCTCTGATGAGGAAGCGGAGGATGAAGAAATGATGGAGGTTGAAAAATCAACACCATCAGATGAAGAAATGTCAGAAGATGAGGTTCAGAAGGTGAAGCCTAGCAGGCGTTCATCACGTGCTGCAGCAGCGCATGCTCAGAAACCCAAACGTCGGCGTATTGTGGTGGCCTCTGACAGTGAAGGCTCTGATGAGGAGTTCAAGCCAGATCAGGCAGAAACCAGCAGTGAGGATGAAGATGGGGTCACTGATGGGGTCAGTGAGGCGGAGGAGAGTATATCTGAATCTGAACCGGACAGTCCTGTGAAACCTGTAAAACGGAAACGTGTAACAGAGAAAATGGATAAAACAAAGAGTACACCTATACCGTCAGAGATCCACAAGAGCAATGCTGTGGGTCTTGCAACTGACACAAAGTCACGTCTGTCTGCTTTTTCTGCTCCAGACAGCTTTGAGAGTCAGGGCAGTGCTGCAGGAAACCTAGATGGCGTTGGTGTGTGGGACCATGAAAAATTGGATTGGTTGCGggatggcaaaagaaaggatgctCGGAGGAGGCGTCAGGTGGATGAGGACTATGATCCAACCACTCTATTTGTGCCTGAAGACTTCCTTAACAGGGTTACACCTGGCATGCGTCGATGGTGGCAGCTCAAGTCAGGGATGTTTGATACTGTTCTTTTCTATAAAGTCGGCAAGTTTTATGAGCTCTACCACATGGACGCTGTGATTGGTGTCAATGAGTTGGGGCTTACTTTCATGAAAGGCACCTGGGCACATTCTGGTTTCCCTGAGATAGGTTTTGGCCGTTTCTCTGATGTGCTCGTACAAAAAGGTTACAAGGTGGCACGCGTAGAACAGACTGAGACCCCTGAAATGATGGAAGCACGATGCAAGGCTATGGTGCGTCCGACTAAATTTGACCGTGTAGTCCGGCGAGAGGTATGCAGAGTAATCACCCGGGGCACCCAGACATATAGTGTGCTTGATGGTGCCCCTTCTGAGGCCGAGAGCAAGTACCTGCtgagtgtgaaagaaaaaaatcaggaggAAAACGCAGGCCAATGTCACATATATGGGGTCTGCTTCATTGACAGCTCAGTGGGTCGCTTTAATGTAGGCCAGTTCCAAGATGACCGCCACTGTTCCCGTCTGCGTACCTTACTTGCACATTATGTGCCAGCCCAGGTGCTATTCGAGAAGGGTAACTTGTCAGCTGAGACGCGGAAGATCTTCAAGGCTGCTCTGTCCTCAGCAATGCACGAGAGTCTCAATGCTGGCTCACAATTCTGGGATGCTCAGAAAACCCTGAAAACCTTAGCCGATGAAGACTACtttaaagaaagtaaagaagagAGCGATAATTCTTCAGCTCTCCCCAGTGCTCTAAAAGCAATGACTTCTGAAAGCGACTCGCTAGGTCTTACTCCTAAAGACGGATATGAACTTGCTCTCTCTGCACTTGGGGGATGCATATTCTATCTTAAAAAATGTCTGGTTGATCAAGAGCTTCTTTCTATGGCTAACTTTCAGGAATATGTTCCAGTGGATGTGGAGATACAGCAGTCAGAGAATGCATCAAATTTCTTTGCCCAAACTTGCCAACGCATGGTGCTGGATGGAGTGACACTGGCCAACCTTGAGATTCTCCAGAATGGTTCTACTGGAGGCACAGAAGGCACTCTGCTTGAACAGTTGGACACCTGCTGTACTCCTTTTGGCAAGAGGCTGCTAAAACAATGGCTCTGTGGTCCCCTCTGTAACCCAGCCTCCATTAATGATCGGTTGAATGCTGTTGAAGACCTAATGGCTGCTCCAGCACAAGCTACTGAGGTTACAGAACTCCTGAAGAAACTCCCAGACCTTGAAAGGTTACTCAGCAAAATCCATAGTATGGGTACTCCTCTGAAGGCACAGGACCACCCGGACAGCAGAGCAGTTCTTTATGAGGAGATTGTCTATAGCAAACGCAAGATTGCTGACTTCCTTTCAGCACTGGAAGGGTTCAAATCCATGCAGGAAATAGTCTCAATCTTGGAGTCAGTCTCAGAAGGATTCCAATCTAAATTGCTTCGGCAAGTAGTGATCCTAAAAACAAGAAGTGATGAGGGGCTTTTTCCCGATCTTAGACCGGAGCTTAACCGCTGGGACACAGCTTTCGACCATCAAAAAGCACGTACGACTGGTGTGATTACACCCAAGGCTGGCTTTGACCCCGAGTATGATCAGGCTCTGAGTGGGATCAAGGACTGTGAGAGAAAACTGCAAGACTACTTGGATAGACAGAAGAAGAGACTTGGCTGCAAGAATTTATCTTACTGGGGCACAGGACGGAACCGATATCAAATGGAGGTTCCAGACAGTGTTTCTGAGAGGAGCATACCAGAAGAATTTGAGGTGAGGTCCACAAAGAAGGGCTGGAAGAGATACTCAACAAAGGAGATTGAGCATATGTTCTCAGAGCTGCAGAGCTGGGAAGACAAAAGGGACACTGCACTGAAAGATTGCATGAGGAGACTGTTTTACAACTTTGATAAAAACTACAGAGACTGGCAGACTGCTGTGGAGTGCATGTCGGTTCTTGATGTGCTGTTGAGTTTGTCCCGATACAGCCAGAGTGGGAACGGGCCGATGGTAAAACCAGAGATTGTTCTGCCAGGTAATAGCCCCCATTCTTCCCCTTTCCTGGACCTCCGAGGATCCCGGCACCCCTGTGTCACCAAAACCTATTTTGGTGATGACTTCATCCCCAATGACATCTTTATTGGTTGTCCTGGcaatgaggaagaggagagcgAAGGCAACAAGAAGGCACTAGCCCCATGTGTACTTGTCACGGGGCCAAACATGGGAGGCAAGTCCACCCTAATGAGGCAGTGTGGCCTGATTGTGATCTTGGCTCAGTTGGGTTGCTATGTGCCTGCTGAAAGCCTGCGCCTAACCCCTGTGGACCGAGTGTTCACTCGCCTTGGTGCCTCAGATCGTATCATGTCTGGAGAGAGTACTTTCTTCGTGGAGCTTAGTGAAACAGCCAGTATCCTCCTGCATGGGACCACTCATTCACTTGTTCTTCTTGATGAACTGGGCAGGGGTACAGCCACCTATGATGGCACAGCCATAGCAAGTGCAGTGGTGAAGGAACTGTCGGAGAGGATCTGTTGCCGAACTCTGTTCTCCACCCACTACCACTCACTGGTAGAAGACTACGCTCAGGACTGTGCTGTTAAACTTGGTCATATGGCCTGCATGGTGGAGAATGAGTGTGATGAGGATCCTAGCCAGGAGACCATCACATTCCTGTACAAGTTCATCAGTGGTGCTTGTCCCAAGAGCTACGGATTTAATGCTGCACGCCTTGCCGATATCCCTGAAGAGGTGCTTCAGTCAGGACATTGTAAAGCCCGTGAGTTTGAGAGGAGCACCATGGCTCTGAGGATCTTCAAgaaagtgtgttcatttactgaagatcGCACAGCTAACCATGAACAGTTTGCCAGACTGGTTCAGATGATTGGTAACCTTTAATAGAGAAAAGAGTTGTACTCTGTATAAGATGGCTATTGTTCAACTGGAAAGTATTTTCACTACTACTGACATGATCTAATAAAGTTTATTCTTAAAAACGCACACGTTCTCGCTTTCACTAGGAAATTAGATCTTTACCAATATCTACTTAATGATTAAGTATGTATGTCACAATATATTAAGTCTAGCTGTCATGGAACATGCATACAATTCTGGCTGTATAAGAACCCAGTCATCAGATGCAGTTGTAGGAAAAAAgccaaagcaaaaaaagaaaaaaatgtcagtattaATCTGAGCTTCAATAAAGCAAGAAACTGCTTTACATTTTCTGCAGCAGAGTAGCTCATTCATTTGGTTTAACCCTTTCACCCAGGACATTTCGAGGAAAAGGCAACGATCAGTGACGTTATGAGAATGCTTCTATACATATTTCACCAGTCATTATTGGGTGAAAAATCTGACGACTATTAGCAGAGGAAGGGTAATCCCAAGGAGGACAAGTCAGAGATGGATTATacagtcattaaaaaaagaagttaaaCAGAGGTATTTTCAAAATCAAGAACGTACAGAGGCCACAACCTTTACTCCATTAGGCTTGTGAAAACACTCGTTCTGccattaaaacattttccctttaattaaaaaaaaa

Function

GO:

id name namespace
GO:0043570 maintenance of DNA repeat elements biological_process
GO:0016446 somatic hypermutation of immunoglobulin genes biological_process
GO:0045190 isotype switching biological_process
GO:0009411 response to UV biological_process
GO:0006200 obsolete ATP catabolic process biological_process
GO:0045910 negative regulation of DNA recombination biological_process
GO:0000710 meiotic mismatch repair biological_process
GO:0008630 intrinsic apoptotic signaling pathway in response to DNA damage biological_process
GO:0007131 reciprocal meiotic recombination biological_process
GO:0032301 MutSalpha complex cellular_component
GO:0000228 nuclear chromosome cellular_component
GO:0005524 ATP binding molecular_function
GO:0000400 four-way junction DNA binding molecular_function
GO:0003684 damaged DNA binding molecular_function
GO:0032137 guanine/thymine mispair binding molecular_function
GO:0032138 single base insertion or deletion binding molecular_function
GO:0008094 DNA-dependent ATPase activity molecular_function

KEGG:

id description
K08737 MSH6; DNA mismatch repair protein MSH6

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU62032 lncRNA downstream 34297 25459833 ~ 25460379 (-) True G52477
TU62026 lncRNA downstream 44283 25449670 ~ 25450393 (-) True G52474
TU61997 lncRNA downstream 130632 25362988 ~ 25364044 (-) True G52453
TU61996 lncRNA downstream 132213 25361521 ~ 25362463 (-) True G52452
TU61995 lncRNA downstream 133765 25358621 ~ 25360911 (-) True G52451
TU62072 lncRNA upstream 8661 25513417 ~ 25513806 (-) True G52509
TU62095 lncRNA upstream 89480 25594236 ~ 25594907 (-) True G52532
TU62139 lncRNA upstream 165210 25669966 ~ 25671990 (-) True G52555
TU62152 lncRNA upstream 170320 25675076 ~ 25675316 (-) True G52564
TU62328 lncRNA upstream 225689 25730445 ~ 25730870 (-) True G52714
XM_026939333.2 mRNA downstream 164474 25308306 ~ 25330202 (-) True dnajc12
XM_026939334.2 mRNA downstream 164512 25308306 ~ 25330164 (-) False dnajc12
XM_026939252.2 mRNA downstream 403854 24812974 ~ 25090822 (-) True LOC113542016
XM_034302739.1 mRNA downstream 758788 24700830 ~ 24735888 (-) False herc4
XM_034302737.1 mRNA downstream 758799 24669150 ~ 24735877 (-) True herc4
XM_026939162.2 mRNA upstream 180928 25685684 ~ 25697851 (-) True LOC113541965
XM_034302898.1 mRNA upstream 245297 25750053 ~ 25770046 (-) True mertka
XM_034302899.1 mRNA upstream 245297 25750053 ~ 25770044 (-) False mertka
XM_026939300.2 mRNA upstream 268131 25772887 ~ 25791400 (-) True lhcgr
XM_034302838.1 mRNA upstream 418274 25923030 ~ 25966974 (-) False anapc1
XR_004577835.1 other downstream 758789 24682246 ~ 24735887 (-) False herc4
XR_003404244.2 other downstream 842829 24453119 ~ 24651847 (-) False lyst
XR_004577838.1 other downstream 842829 24471703 ~ 24651847 (-) False lyst
XR_004577819.1 other downstream 1454576 24017264 ~ 24040100 (-) False mlh1
TU60979 other downstream 2040459 23447908 ~ 23454217 (-) True G51576
XR_003404274.1 other upstream 405262 25910018 ~ 25910119 (-) True LOC113542183
TU63465 other upstream 2033020 27537776 ~ 27541299 (-) False zgc:163080
TU64047 other upstream 2928464 28433220 ~ 28435411 (-) True G54269
trnae-cuc_11 other upstream 3697176 29201932 ~ 29202003 (-) True trnae-cuc_11
LOC113541988 other upstream 4174655 29679411 ~ 29681726 (-) True LOC113541988

Expression Profile