Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi07g00239 ATGATCCGTCTCTCCCGCAACCTCTCCACAGTCTCCAAACTTAGCCGTTTGCAAAACCTCCAAAAACCGGCGACGCTAAATTTCATTCCCTTTTCTCAGTTGCAACAGCAGCGGAAGCTTTTAGAATGGCGACTTATAAGTATTCTTCACGACTGCACGGTCTTTTCTCAAATCAAGCAAGTCCACGGCCATATCGTCCGCAACGGATTGAGTCAATGCTCTTACGTCCTCACCAAACTCATCCGCATGCTCACGAGGGTAGATGTCCCGATGGATTCCTACCCACGTCTGGTTTTTGGACAGGTTAAATACCCCAACCCCTTTCTTTGGACTGCCATGATTCGTGGGTATGCGCTTCAAGGACCCTTGTCTGAATCTATTAACTTGTATACGAGAATGAGGAGGGATGGCGTCAGTCCTGTTTCGTTTACGTTTTCGGCGCTTTTTAAAGCTTGTGGGGCTGTTCTTAATCTGGATTTGGGTAAGCAGGTGCACGCCCACACGATTTTGATTGGGGGATTTGCTTCTGATTTGTATGTTGGTAATACGATGATTGATATGTATGTGAAATGTGGGTTCTTGGGTTGTGGGCGGAAGGTGTTCGATGAAATGTCTGAGAGAGATGTGGTTTCTTGGACTGAGCTGATTGTTGCGTATGCGAAGTTTGGGGATATGGAATCTGCTGGTGACCTGTTTGATGAATTGCCTTTGAAGGATATGGTGGCATGGACGGCAATGGTCACTGGTTATGCCCAAAATGCTAGACCAAAGGAGGCATTGGAGTATTTTCAAAAAATGCAGGACGTAGGTATGGACACCGATGAAGTTACACTGGTTGGTGTCATCTCGGCCTGTGCACAGTTGGGTGCAGTTAAATATGCTAACTGGATTAGAGACATTGCTGAAAAATCAGGTTTTGGACCTTCTGAAAATGTAGTCGTGGGATCTGCTCTTATTGATATGTACTCTAAATGTGGCAGTCCTGATGAGGCATATAAGGTTTTTGAAGTAATGAAGGAAAGAAATGTGTTTTCTTATAGTTCAATGATTGCGGGATATGCAATGCATGGTCGTGCTCATTCAGCTTTGCAGTTGTTCCATGAGATGTTAAAGACAGAAATCAGACCGAATAAGGTTACTTTTATTGGGGTGCTTTCAGCCTGCAGCCATGCCGGTTTGGTTGAACAAGGTCGGCAGCTATTCGCTAAGATGGAGAAGTATTTTAGTGTTGCTCCTTCACCTGATCACTATGCATGTATGGTAGATCTCCTTGGTCGAGCTGGATGTTTAGAAGAAGCACTCGAGCTCATCGAAACCATGTCAATGGAACCCCACGGAGGTGTATGGGGAGCACTGCTTGGAGCTTGCCGCATCCATGGGAATCCTGACATTGCTCAAATAGCTGCAAACCAACTATTCGAGCTCGAACCAGATGGTATAGGGAACTACATTCTGCTATCAAACATATATGCATCAGCAGGAAGGTGGGAAGAAGTATCGAAATTGAGGAAAGTGATTAGAGAAAAAGGCTTAAAAAAGAATCCTGGCTGCAGCTGGTTTGAAGGAAAGAAGGGGGAAATTCACGAGTTCTTTGCTAGTGATACAACCCATCCACGATCAGGTGAGATTAGAGAAGCCTTGAAGCAACTCCTTGAAAGATTAAGAGCCCATGGATACAAGCCAAACTTGAGATCTGTGCCTTATGATATGAGTGATGATGAAAAGGAGCGAATACTGATGAGTCATAGTGAAAAGCTTGCATTGGCATATGGATTGCTATGTACTGATGCTGGTGATACCATTAAGATCATGAAAAACCTTAGGATATGCGAGGATTGCCACAATGTCATGTGTGCTGCATCTGAGATCACTGGAAGGGAGATCATTATAAGGGATAACATGAGATTTCATCACTTCCACAACGGGACTTGTTCTTGTGGTAACTTTTGGTGA 1953 44.44 MIRLSRNLSTVSKLSRLQNLQKPATLNFIPFSQLQQQRKLLEWRLISILHDCTVFSQIKQVHGHIVRNGLSQCSYVLTKLIRMLTRVDVPMDSYPRLVFGQVKYPNPFLWTAMIRGYALQGPLSESINLYTRMRRDGVSPVSFTFSALFKACGAVLNLDLGKQVHAHTILIGGFASDLYVGNTMIDMYVKCGFLGCGRKVFDEMSERDVVSWTELIVAYAKFGDMESAGDLFDELPLKDMVAWTAMVTGYAQNARPKEALEYFQKMQDVGMDTDEVTLVGVISACAQLGAVKYANWIRDIAEKSGFGPSENVVVGSALIDMYSKCGSPDEAYKVFEVMKERNVFSYSSMIAGYAMHGRAHSALQLFHEMLKTEIRPNKVTFIGVLSACSHAGLVEQGRQLFAKMEKYFSVAPSPDHYACMVDLLGRAGCLEEALELIETMSMEPHGGVWGALLGACRIHGNPDIAQIAANQLFELEPDGIGNYILLSNIYASAGRWEEVSKLRKVIREKGLKKNPGCSWFEGKKGEIHEFFASDTTHPRSGEIREALKQLLERLRAHGYKPNLRSVPYDMSDDEKERILMSHSEKLALAYGLLCTDAGDTIKIMKNLRICEDCHNVMCAASEITGREIIIRDNMRFHHFHNGTCSCGNFW 650
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
7 2644023 2645975 + Lsi07G002390.1 Lsi07g00239 666661

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi07g00239 650 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 239 273 IPR002885 -
Lsi07g00239 650 Gene3D Tetratricopeptide repeat domain 316 538 IPR011990 GO:0005515
Lsi07g00239 650 Gene3D Tetratricopeptide repeat domain 173 313 IPR011990 GO:0005515
Lsi07g00239 650 TIGRFAM PPR: pentatricopeptide repeat domain 241 271 IPR002885 -
Lsi07g00239 650 TIGRFAM PPR: pentatricopeptide repeat domain 317 343 IPR002885 -
Lsi07g00239 650 TIGRFAM PPR: pentatricopeptide repeat domain 182 210 IPR002885 -
Lsi07g00239 650 TIGRFAM PPR: pentatricopeptide repeat domain 344 377 IPR002885 -
Lsi07g00239 650 TIGRFAM PPR: pentatricopeptide repeat domain 109 140 IPR002885 -
Lsi07g00239 650 Pfam E motif 459 521 IPR046848 -
Lsi07g00239 650 Pfam PPR repeat family 341 389 IPR002885 -
Lsi07g00239 650 Pfam PPR repeat family 105 152 IPR002885 -
Lsi07g00239 650 Pfam PPR repeat family 238 286 IPR002885 -
Lsi07g00239 650 PANTHER PENTATRICOPEPTIDE REPEAT-CONTAINING PROTEIN 11 633 - -
Lsi07g00239 650 Gene3D Tetratricopeptide repeat domain 31 172 IPR011990 GO:0005515
Lsi07g00239 650 Pfam PPR repeat 182 208 IPR002885 -
Lsi07g00239 650 Pfam PPR repeat 210 236 IPR002885 -
Lsi07g00239 650 Pfam PPR repeat 417 440 IPR002885 -
Lsi07g00239 650 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 311 341 IPR002885 -
Lsi07g00239 650 Pfam E+ motif 527 554 IPR046849 -
Lsi07g00239 650 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 177 211 IPR002885 -
Lsi07g00239 650 Pfam DYW family of nucleic acid deaminases 558 650 IPR032867 GO:0008270
Lsi07g00239 650 PANTHER BNAC09G18050D PROTEIN 11 633 - -
Lsi07g00239 650 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 106 140 IPR002885 -
Lsi07g00239 650 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 342 376 IPR002885 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi07g00239 - - - csv:101203412 1209.13
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi05g00447 Lsi-Chr5:5730434 Lsi07g00239 Lsi-Chr7:2644023 1.28E-90 dispersed
Lsi07g00239 Lsi-Chr7:2644023 Lsi02g01289 Lsi-Chr2:17242279 1.76E-45 dispersed
Lsi07g00239 Lsi-Chr7:2644023 Lsi02g02703 Lsi-Chr2:33403074 3.06E-46 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
Vvi4g1035 . . . . . . . . . Cmo16g00690 . . . . . . . . . . . . . . . . . . . . . . . . . . . Chy07g01258 . . . . . . . Bma03g00979 . . . . Cma16g00633 . . . . Cpe14g00540 . . . . . . . Cla07g00830 . . . . . . Lsi07g00239 . . .
       

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
OG0012740 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 0 1 1 1 0 0 1 1 1 1 1 1 1 27
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi07g00239 Lsi_Chr07 FPKM 2.706037 1.140444 0.0 0.0 10.055367 6.518448 7.658958 0.0 0.0 0.0