Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g01549 ATGGTGTTACTGGTCGCTTCGTCGTCCATTGATTCGGGGATTGGTTGCTGGGACCTCCAAACGGGTGCGGAACAACTACGTTACAAGTCTTGTGCTTCTCCGGCACATGGTCTTGTTTGCGTTGGCGAAAGGTTTCTCGCATGCTCTCAGCTCCGCGATCCCGCTGCCACCGCAGGCTCTGTTCTCTACTGGTCTTGGTGTAAGCCGCAAGTAGAAGTTAAGAGCTTTCCGGCTGAACCAATAATGGCCTTGGCTTCCAACAGTGAGGGTACTTATATCGTTGGTGGTGGTTTCTCTGGAGATATATACTTATGGGAGGTTTTGAGCGGTAGACTGCTTAAGAAATGGCATGCTCATTATAGGGCAGTTACTTGCCTCGTATTCTCTGAAGATGACTCCCTGCTAATTTCCGGTTCTGAAGATGGTTGCATTAGAGTTTGGTCCCTTCTAACGGTATTTGATGATGGATGGCAAAGGGAAGCAAAACATCTGTATGAACATAGTTTCACTGGGCATAATCTACCTGTTACTGATATTGTTATTGGCTATGGAGGATTCAATGCTATTATAATCTCTTCCTCTGTGGATCATACTTGTAAGGTGTGGAGCTTATCTAAGGGGAAATTATTAAGAAATATCATATTTCCTTCAATCATTGATGCAATTGCTTTGGATCCTGGTGAACATGTCTTCTATGGTGGTGGTAGAGATGGGAAGATCTACACTGCTGCGCTCAATGCTAAATGCCCATCCAGCAATGACTATGGATTGCACATTCTTGGCTCATTTTCAAATCAAAGCAAGTCTGTTACTTCCTTGGCATACTGCTCAAGTGGTAATTTGTTGATCTCTGGATCTGAGGATGGAGCAATAAGAGTTTGGGATACAAGAACGAATAATGTTATACGAGTTTTCAAACATTCAAAAGGTCCTGTAAATAATATACTACTTGTTCGACAACAGCTCCTCCCTAAATCACAGTCAACTTCCCAAGGTTCTTTGAGAAAGCACCGGTCACTGTTACCTCCTGCCCTTGCGAAATTTGAGAACTCAAAGGATGAGGATGAAGACACTGGTGTTATCATTGGTTCATCAGGTCCTCCCAAGGAATTTATGTGGTTTTCCCCCCTTAGTTCTCACGTGATGGATAATCAAATCACAGAACTTCAGGTGCTTGCTCTTGTCACGTCCCACTTCCCTGTGCAACAGGGTTCTGCTGCCACAGGAATGGAGTTGGAAAGACTTAAGCATGATTGTGGAAAATCCGTTCAAATGCTACAAGATTGGAGAAAAATGTACGATAATTTACATCAATTTTGTGTTAATGAGCTTCTGGATGGCGATCAAACTAAAACTTTAGAAGGCAATTCCGCTTGA 1377 43.36 MVLLVASSSIDSGIGCWDLQTGAEQLRYKSCASPAHGLVCVGERFLACSQLRDPAATAGSVLYWSWCKPQVEVKSFPAEPIMALASNSEGTYIVGGGFSGDIYLWEVLSGRLLKKWHAHYRAVTCLVFSEDDSLLISGSEDGCIRVWSLLTVFDDGWQREAKHLYEHSFTGHNLPVTDIVIGYGGFNAIIISSSVDHTCKVWSLSKGKLLRNIIFPSIIDAIALDPGEHVFYGGGRDGKIYTAALNAKCPSSNDYGLHILGSFSNQSKSVTSLAYCSSGNLLISGSEDGAIRVWDTRTNNVIRVFKHSKGPVNNILLVRQQLLPKSQSTSQGSLRKHRSLLPPALAKFENSKDEDEDTGVIIGSSGPPKEFMWFSPLSSHVMDNQITELQVLALVTSHFPVQQGSAATGMELERLKHDCGKSVQMLQDWRKMYDNLHQFCVNELLDGDQTKTLEGNSA 458
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 23054527 23058601 + Lsi04G015490.1 Lsi04g01549 661598

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g01549 458 ProSiteProfiles Trp-Asp (WD) repeats profile. 263 304 IPR001680 GO:0005515
Lsi04g01549 458 PANTHER WD REPEAT-CONTAINING PROTEIN 18 2 444 - -
Lsi04g01549 458 SMART WD40_4 206 244 IPR001680 GO:0005515
Lsi04g01549 458 SMART WD40_4 69 106 IPR001680 GO:0005515
Lsi04g01549 458 SMART WD40_4 109 148 IPR001680 GO:0005515
Lsi04g01549 458 SMART WD40_4 256 295 IPR001680 GO:0005515
Lsi04g01549 458 SMART WD40_4 162 203 IPR001680 GO:0005515
Lsi04g01549 458 PRINTS G protein beta WD-40 repeat signature 282 296 IPR020472 -
Lsi04g01549 458 PRINTS G protein beta WD-40 repeat signature 135 149 IPR020472 -
Lsi04g01549 458 PRINTS G protein beta WD-40 repeat signature 190 204 IPR020472 -
Lsi04g01549 458 Pfam WD domain, G-beta repeat 111 148 IPR001680 GO:0005515
Lsi04g01549 458 Pfam WD domain, G-beta repeat 260 295 IPR001680 GO:0005515
Lsi04g01549 458 Pfam WD domain, G-beta repeat 167 203 IPR001680 GO:0005515
Lsi04g01549 458 ProSiteProfiles Trp-Asp (WD) repeats profile. 169 212 IPR001680 GO:0005515
Lsi04g01549 458 PANTHER WD-REPEAT PROTEIN 18 2 444 IPR045227 -
Lsi04g01549 458 ProSitePatterns Trp-Asp (WD) repeats signature. 282 296 IPR019775 -
Lsi04g01549 458 ProSiteProfiles Trp-Asp (WD) repeats circular profile. 116 149 - -
Lsi04g01549 458 ProSiteProfiles Trp-Asp (WD) repeats circular profile. 263 298 - -
Lsi04g01549 458 ProSiteProfiles Trp-Asp (WD) repeats profile. 116 149 IPR001680 GO:0005515
Lsi04g01549 458 Gene3D - 215 322 IPR015943 GO:0005515
Lsi04g01549 458 SUPERFAMILY WD40 repeat-like 5 316 IPR036322 GO:0005515
Lsi04g01549 458 Gene3D - 2 214 IPR015943 GO:0005515
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g01549 K14829 IPI3; pre-rRNA-processing protein IPI3 - csv:101204364 837.025
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi04g01549 Lsi-Chr4:23054527 Lsi07g00291 Lsi-Chr7:3111053 3.84E-45 dispersed
Lsi04g01549 Lsi-Chr4:23054527 Lsi02g02285 Lsi-Chr2:29422484 7.20E-06 transposed
       

Deco-Alignment

Select Vvi1 Blo1 Blo2 Bda1 Bda2 Bpe1 Bpe2 Bma1 Bma2 Cmo1 Cmo2 Cma1 Cma2 Car1 Car2 Sed1 Cpe1 Cpe2 Bhi1 Tan1 Cmetu1 Lac1 Hepe1 Mch1 Lcy1 Cla1 Cam1 Cec1 Cco1 Clacu1 Cmu1 Cre1 Cone1 Cone2 Cone3 Cone4 Lsi1 Csa1 Chy1 Cme1 Blo3 Blo4 Bda3 Bda4 Bpe3 Bpe4 Bma3 Bma4 Sed2 Cmo3 Cmo4 Cma3 Cma4 Car3 Car4 Cpe3 Cpe4 Bhi2 Tan2 Cmetu2 Lac2 Hepe2 Mch2 Lcy2 Cla2 Cam2 Cec2 Cco2 Clacu2 Cmu2 Cre2 Lsi2 Csa2 Chy2 Cme2
Vvi18g753 Blo01g01526 . Bda01g00570 . Bpe02g00431 . . Bma01g02270 . . . . . . . Cpe06g00165 . . . . . . . . . . . . . . . . . . . Lsi04g01549 Csa04g02420 . . . . . . . . . . Sed09g0365 . Cmo09g00230 . . . . . Cpe02g00186 Bhi09g03308 Tan01g4765 Cmetu07g1918 . Hepe01g1773 Mch11g0299 . Cla05g02050 Cam05g2202 Cec05g2219 . Clacu05g2194 Cmu05g2060 . . . Chy07g00141 .
       

Syn-Orthogroups

Select Orthogroup Bda Bhi Blo Bma Bpe Cam Car Cco Cec Chy Cla Clacu Cma Cme Cmetu Cmo Cmu Cone Cpe Cre Csa HCH Hepe Lac Lcy Lsi Mch Sed Tan Vvi Total
OG0003200 1 2 2 1 1 1 1 1 1 1 1 1 2 1 2 3 1 2 2 1 1 1 2 1 2 1 3 2 8 1 50
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g01549 Lsi_Chr04 FPKM 6.776584 6.565842 8.184397 7.01705 5.634512 4.560199 5.921494 11.064502 11.191195 11.181603