Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g01241 ATGGCAAAATACGCTTTAGGCTCCGAACCAGTGGTGGGTTCGTTAACGCCATCCAAGAAGAGGGAGTACAGAGTCACCAACCGGCTTCAAGAGGGGAAAAGGCCTCTTTATGCTGTAGTTTTCAACTTCATCGACTCTCGATACTTCAATGTCTTTGCCACTGTTGGCGGCAATCGGGTTACAGTTTACCAATGTCTTGAAGGGGGTGTTATAGCCGTGTTGCAGTCTTACGTCGATGAAGATGTGAATCAGAAGGATGAGTCTTTTTACACTGTAAGCTGGGCGTACAATGTTGATGGCTGCCCATTTGTTGTTGCTGGTGGAATCAATGGTATAATCCGTGTTATTGATGCTGGCAGTGAAAAGATATATAAGAGTTTCGTTGGTCATGGTGATTCAATAAATGAAATCAGGACTCAGCCACTGAAACCATCACTTGTGATCTCTGCAAGCAAAGATGAATCTGTTCGATTATGGAATGTTCATACAGGTATTTGCATTTTGGTATTTGCTGGTGCAGGCGGTCATCGTAATGAGGTCTTAAGTGTGGATTTCCATCCATCTGATATCTATCGCATTGCTAGCTGTGGAATGGACAACACTGTGTTCATAGCATCAGTTCATTCGAATTATGTTGACTGCAGTAGGTGGCTCGGTGATTTTATTCTTTCAAAGGTCAACAAGCTTCTCTTTCCATTGATATTGTGTTTGCCAGTTGTCGGGAGTACATATTTTGTAGTACCAATCGGAAAAATATTAAACCTACTACTTTGGAATCTAGAACTTGGGCATGTGACTCCCTTGACCCCAAGCCATAAGCCAGTGATCTGTAATAAGGATTATGTTTCTGCATTTCAGAGTGTTGACAATGAAATAGTGTTGTGGGAACCTAAAATGAAGGAACAGTCACCTGGAGAGGGTACTGTGGATATTCTTCAGAAGTACCCTGTTCCTGAATGTGATATTTGGTTCATCAAGTTTTCCTGTGATTTTCATTATAATGCAGCTGCTATAGGTAATTCCATGCCATGCCTAATCAACCAACTCATGCCAAGGCATTGCAACATATCAAGCCCCCCAGTTCTCATTGCAAGGTTGTCTCATGCCCAGTCGAAGTCTCCCATCAGACAAACAGCCATGTCCTTTGATGGAAGTATAATTCTGAGCTGCTGTGAAGATGGGACAATTTGGCGCTGGGATGCTATGACAACCACTTGA 1218 42.78 MAKYALGSEPVVGSLTPSKKREYRVTNRLQEGKRPLYAVVFNFIDSRYFNVFATVGGNRVTVYQCLEGGVIAVLQSYVDEDVNQKDESFYTVSWAYNVDGCPFVVAGGINGIIRVIDAGSEKIYKSFVGHGDSINEIRTQPLKPSLVISASKDESVRLWNVHTGICILVFAGAGGHRNEVLSVDFHPSDIYRIASCGMDNTVFIASVHSNYVDCSRWLGDFILSKVNKLLFPLILCLPVVGSTYFVVPIGKILNLLLWNLELGHVTPLTPSHKPVICNKDYVSAFQSVDNEIVLWEPKMKEQSPGEGTVDILQKYPVPECDIWFIKFSCDFHYNAAAIGNSMPCLINQLMPRHCNISSPPVLIARLSHAQSKSPIRQTAMSFDGSIILSCCEDGTIWRWDAMTTT 405
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 19327709 19332971 + Lsi04G012410.1 Lsi04g01241 661290

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g01241 405 Gene3D - 18 403 IPR015943 GO:0005515
Lsi04g01241 405 PANTHER BNAA05G20150D PROTEIN 202 231 - -
Lsi04g01241 405 SMART WD40_4 67 117 IPR001680 GO:0005515
Lsi04g01241 405 SMART WD40_4 163 206 IPR001680 GO:0005515
Lsi04g01241 405 SMART WD40_4 359 400 IPR001680 GO:0005515
Lsi04g01241 405 SMART WD40_4 120 160 IPR001680 GO:0005515
Lsi04g01241 405 Pfam WD domain, G-beta repeat 174 204 IPR001680 GO:0005515
Lsi04g01241 405 Pfam WD domain, G-beta repeat 125 160 IPR001680 GO:0005515
Lsi04g01241 405 ProSitePatterns Trp-Asp (WD) repeats signature. 147 161 IPR019775 -
Lsi04g01241 405 PANTHER POLYCOMB PROTEIN 202 231 - -
Lsi04g01241 405 PANTHER POLYCOMB PROTEIN 275 403 - -
Lsi04g01241 405 PANTHER POLYCOMB PROTEIN 1 204 - -
Lsi04g01241 405 PANTHER BNAA05G20150D PROTEIN 275 403 - -
Lsi04g01241 405 PANTHER BNAA05G20150D PROTEIN 1 204 - -
Lsi04g01241 405 ProSiteProfiles Trp-Asp (WD) repeats profile. 127 169 IPR001680 GO:0005515
Lsi04g01241 405 SUPERFAMILY WD40 repeat-like 27 400 IPR036322 GO:0005515
Lsi04g01241 405 ProSiteProfiles Trp-Asp (WD) repeats circular profile. 127 164 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g01241 K11462 EED; polycomb protein EED - jre:108983540 545.428
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi04g01241 Lsi-Chr4:19327709 Lsi10g00406 Lsi-Chr10:6160066 2.57E-08 dispersed
Lsi04g01241 Lsi-Chr4:19327709 Lsi11g01130 Lsi-Chr11:19742629 9.73E-09 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
Vvi19g432 . . . Bda09g00384 . Bpe08g01140 . . . . . . . Car09g00842 Sed04g3180 Cpe06g00746 . Bhi09g01944 Tan01g4508 Cmetu04g2640 . Hepe01g1309 . . . . . . . . . Cone6ag0087 Cone9ag0102 . . Lsi04g01241 . Chy04g01012 . . . . . . . Bma07g01314 . . . . . . . . . . . . . . . . . Cla05g01537 Cam05g1644 Cec05g1650 . Clacu05g1638 Cmu05g1533 Cre05g1643 . . . Cme04g00806
       

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
OG0011571 1 1 1 1 1 1 1 1 1 1 1 1 0 1 1 0 1 2 1 1 1 1 1 1 1 1 1 1 2 1 30
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g01241 Lsi_Chr04 FPKM 15.976385 15.803429 12.929484 13.011958 16.21409 17.394083 15.547765 15.398815 13.673504 13.203938