Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g00341 ATGCTTAGCCGTATTCATCAATGGAAGCCATTACATTTTCTGAGGAAATGTGGGATACTTGCTAGGCCTTCAGTTTCTGCCGCTCGACTCAAAGCGGAATCCGTCACTACCTCCCTTGTTCTGGACCGGGATGACCCAGTTTGTGAAATTCTTACGGGTTTAAATTCCTTTGGGTTTAGAGCATATGTTGGTGGATGTAACTTTCAAACTGTTGTTTCTACTTTGAGTGAAACTGTAGTGGACGATGTTCTTGATAACTTGAGAACTCAAAATCCTGATGTTGCTGTGGCTTTTTTCTATTTGTTAAGAAACAAGTATGGATTTCGGCATTCCGGATTCTCCCAGTTTGCTGTTTCTCATATTTTAGCGGGTAAAGAACGATTCAAGGAGTTGCATTCCGTGATAAAGCAATTGCTTGAGGAGCAAGGGTCAGGCTCTGCATCTACCTTTTGTGACCTGCTATTGAACAAATTCAGGAATTGGGATTCAAATGGTGTGGTATGGGATATGCTGGCATTTGTGTACGCTAGACATGAAATGATCCAGGATGCCCTCTACGTCATTGCAAAGATGAAGGATCTAAATTTACAAGCTTCAGTTCCAACTTATAACTCTCTGTTGCATAACATGAGGCACACTAATATTATATGGGATATATACAATGAGATCAAAGTTAGTGGAGCTCCTCATAGTGAATATACTACCTCAATACTTATACACGGCCTATGTGAGCAATCCAAGTTACAAGATGCGATTTCATTCTTACAGGACAGCAATGAAGTAGTTGGACCTTCTATTGTGTCTATCAATACCATAATGTCAAGGTTTTGCAAAGTGGGACTAATAGATGTTGCAAGGTCATTTTTTTGTTTGATGGTCAAGAATGGACTTCTTCCTGATTCCTACAGTTATAATATTCTTGTTCATGGGTTATGTGTAGCAGGTTCCATGGACGAAGCTCTGGAATTCGCAGATGACATGAAAAAGCATGGTGTGGAACCTGATGTAGTAACACACAACACACTCGCCAAAGGATTTCTCCTGCTTGGTTTGATGAGTGGGGCCCAGAAAGTTGTCCAGAAAATGTTGCTGAAAGGTCTAAATCCAGATCTTGTGACATATACAATACTGATATGTGGACATTGTCAGATGGGAAATATTGAGGAAGCTCTTAAACTGCGGCAAGAAACTCTTTCAAGGGGGTTTAAGTTGAATATCATTTCCTATAGTGTGCTACTTAGCTGTTTGTGTAAAGTTGGACGTATAGAAGAGGCATTGACATTGCTTGATGAAATGGAAACTCTACGTTTAAAACCTGATTTTATAGTATATTCAATCCTCATTCATGGCCTCTGCAAGGAAGGGTTTGTACAAAGGGCTTACCAACTATATGAACAAATGTGCTTGAAGAGAATTTTTCCAAACTACTTTGCTCAACGTGCTGTACTGTTAGGTCTACTTGAGAATGGAAATATATCTGAGGCAAGAAAATATTTTGATGCTATGACTTATATGGATCTGATAGAGGATGTTGTTTTGTATAATATTATGATTGATGGTTACGTAAGACTTGGTGATATTGCTGAGGCCATGCAGCTATATTACATAATGATTGAAAGGGGGATCACTCCAAGTGTTGTCACTTTCAACACTCTTGTCAATGGATTTTGCAGAAAGGGAGACCTAGTGGAGGCTCGAAAGATGTTGGAAGTCATTAGGTTGAATGGATTGCTACCTAGTGTGGTAACTTATACTACCCTTATGAATGCGTACTGTGAAGTAGGAAACATGCAGGAAATGTTTGATCTTCTTCATGAGATGGAAGCAAACTCTGTTACTCCAACTCATGTAACTTTTACTGTACTAATCAAAGGACTTTGCAGACAGAATAAGATGCATGAATCCCTCCAGTTGCTAGAGTATATGTATGCAAAGGGTCTAATGCCAGATCCGATCACATATAATACTATTATCCAAAGTTTTTGTAAGGGAAGAGACATTGCCAAAGCTTTCCAGCTTTATAATAAGATGTTGCTCCATAATCTTGATCCTACCCATGTAACTTATAACGTACTTATTAATGGTCTTTGTATATATGGTGACCTAAAGGATGCTGATCAAATGCTAGTTTCTATGGAGGATCAAAATATTAGCTTGACAAAAGTTGCTTATATGACAATAATTAAAGCACATTGTGCAAAGGGTCAGGTCTCTAAAGCATTACGGTTCTTCAATCAAATGTTGGCTAAGAATTTTGTCATCTCCATTAGAGATTATAGCGCTATCATTAATCGGCTGTGCAAAAGGGGTCTAATTACTGAAGCGAAGTACTTCTTTGTTATGATGTTATCAGAAGGCGTAACTCCTGATTCTGAAATTTGTGAGACAATGCTTAATGCTTTCCATCAACAGGGCGATAACAATTCAGTGTTTGAATTCCTCGCTATGGTGGGTGTAGAGGATAAATTTCTCTCTGTGGAATATATCAAACTTTATGCCGCAGATAATCAACGAAAGGAAAATCATGTCAATGACCCTCATGGGGCTCTCCCTGCTTGGAGGCTGCAGCAGAGTTGTGCTAACAACTATAAGCTGAGATTGATTCCTTGCAACTAG 2616 38.99 MLSRIHQWKPLHFLRKCGILARPSVSAARLKAESVTTSLVLDRDDPVCEILTGLNSFGFRAYVGGCNFQTVVSTLSETVVDDVLDNLRTQNPDVAVAFFYLLRNKYGFRHSGFSQFAVSHILAGKERFKELHSVIKQLLEEQGSGSASTFCDLLLNKFRNWDSNGVVWDMLAFVYARHEMIQDALYVIAKMKDLNLQASVPTYNSLLHNMRHTNIIWDIYNEIKVSGAPHSEYTTSILIHGLCEQSKLQDAISFLQDSNEVVGPSIVSINTIMSRFCKVGLIDVARSFFCLMVKNGLLPDSYSYNILVHGLCVAGSMDEALEFADDMKKHGVEPDVVTHNTLAKGFLLLGLMSGAQKVVQKMLLKGLNPDLVTYTILICGHCQMGNIEEALKLRQETLSRGFKLNIISYSVLLSCLCKVGRIEEALTLLDEMETLRLKPDFIVYSILIHGLCKEGFVQRAYQLYEQMCLKRIFPNYFAQRAVLLGLLENGNISEARKYFDAMTYMDLIEDVVLYNIMIDGYVRLGDIAEAMQLYYIMIERGITPSVVTFNTLVNGFCRKGDLVEARKMLEVIRLNGLLPSVVTYTTLMNAYCEVGNMQEMFDLLHEMEANSVTPTHVTFTVLIKGLCRQNKMHESLQLLEYMYAKGLMPDPITYNTIIQSFCKGRDIAKAFQLYNKMLLHNLDPTHVTYNVLINGLCIYGDLKDADQMLVSMEDQNISLTKVAYMTIIKAHCAKGQVSKALRFFNQMLAKNFVISIRDYSAIINRLCKRGLITEAKYFFVMMLSEGVTPDSEICETMLNAFHQQGDNNSVFEFLAMVGVEDKFLSVEYIKLYAADNQRKENHVNDPHGALPAWRLQQSCANNYKLRLIPCN 871
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 3414952 3420430 - Lsi04G003410.1 Lsi04g00341 660390

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g00341 871 TIGRFAM PPR: pentatricopeptide repeat domain 687 719 IPR002885 -
Lsi04g00341 871 TIGRFAM PPR: pentatricopeptide repeat domain 759 791 IPR002885 -
Lsi04g00341 871 TIGRFAM PPR: pentatricopeptide repeat domain 617 650 IPR002885 -
Lsi04g00341 871 TIGRFAM PPR: pentatricopeptide repeat domain 407 440 IPR002885 -
Lsi04g00341 871 TIGRFAM PPR: pentatricopeptide repeat domain 722 755 IPR002885 -
Lsi04g00341 871 TIGRFAM PPR: pentatricopeptide repeat domain 582 615 IPR002885 -
Lsi04g00341 871 TIGRFAM PPR: pentatricopeptide repeat domain 442 475 IPR002885 -
Lsi04g00341 871 TIGRFAM PPR: pentatricopeptide repeat domain 547 580 IPR002885 -
Lsi04g00341 871 TIGRFAM PPR: pentatricopeptide repeat domain 302 336 IPR002885 -
Lsi04g00341 871 TIGRFAM PPR: pentatricopeptide repeat domain 512 545 IPR002885 -
Lsi04g00341 871 TIGRFAM PPR: pentatricopeptide repeat domain 652 685 IPR002885 -
Lsi04g00341 871 TIGRFAM PPR: pentatricopeptide repeat domain 372 405 IPR002885 -
Lsi04g00341 871 TIGRFAM PPR: pentatricopeptide repeat domain 267 301 IPR002885 -
Lsi04g00341 871 Gene3D Tetratricopeptide repeat domain 212 328 IPR011990 GO:0005515
Lsi04g00341 871 Pfam PPR repeat 722 752 IPR002885 -
Lsi04g00341 871 Pfam PPR repeat 759 787 IPR002885 -
Lsi04g00341 871 Gene3D Tetratricopeptide repeat domain 569 642 IPR011990 GO:0005515
Lsi04g00341 871 Gene3D Tetratricopeptide repeat domain 398 469 IPR011990 GO:0005515
Lsi04g00341 871 Gene3D Tetratricopeptide repeat domain 643 716 IPR011990 GO:0005515
Lsi04g00341 871 Gene3D Tetratricopeptide repeat domain 66 211 IPR011990 GO:0005515
Lsi04g00341 871 Gene3D Tetratricopeptide repeat domain 329 397 IPR011990 GO:0005515
Lsi04g00341 871 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 755 789 IPR002885 -
Lsi04g00341 871 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 545 579 IPR002885 -
Lsi04g00341 871 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 440 474 IPR002885 -
Lsi04g00341 871 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 510 544 IPR002885 -
Lsi04g00341 871 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 685 719 IPR002885 -
Lsi04g00341 871 Pfam PPR repeat 365 395 IPR002885 -
Lsi04g00341 871 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 370 404 IPR002885 -
Lsi04g00341 871 Pfam PPR repeat family 649 697 IPR002885 -
Lsi04g00341 871 Pfam PPR repeat family 579 628 IPR002885 -
Lsi04g00341 871 Pfam PPR repeat family 405 453 IPR002885 -
Lsi04g00341 871 Pfam PPR repeat family 264 312 IPR002885 -
Lsi04g00341 871 Pfam PPR repeat family 510 558 IPR002885 -
Lsi04g00341 871 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 580 614 IPR002885 -
Lsi04g00341 871 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 300 334 IPR002885 -
Lsi04g00341 871 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 615 649 IPR002885 -
Lsi04g00341 871 SUPERFAMILY TPR-like 315 539 IPR011990 GO:0005515
Lsi04g00341 871 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 405 439 IPR002885 -
Lsi04g00341 871 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 720 754 IPR002885 -
Lsi04g00341 871 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 650 684 IPR002885 -
Lsi04g00341 871 SUPERFAMILY HCP-like 486 752 - -
Lsi04g00341 871 PANTHER PENTATRICOPEPTIDE REPEAT-CONTAINING PROTEIN PET309, MITOCHONDRIAL 19 817 - -
Lsi04g00341 871 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 265 299 IPR002885 -
Lsi04g00341 871 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 335 369 IPR002885 -
Lsi04g00341 871 Gene3D Tetratricopeptide repeat domain 718 822 IPR011990 GO:0005515
Lsi04g00341 871 Gene3D Tetratricopeptide repeat domain 472 564 IPR011990 GO:0005515
Lsi04g00341 871 PANTHER TETRATRICOPEPTIDE REPEAT (TPR)-LIKE SUPERFAMILY PROTEIN 19 817 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g00341 - - - bhj:120081514 1488.4
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi03g01313 Lsi-Chr3:23942234 Lsi04g00341 Lsi-Chr4:3414952 1.54E-06 dispersed
Lsi04g00341 Lsi-Chr4:3414952 Lsi02g00068 Lsi-Chr2:584860 2.85E-58 dispersed
Lsi04g00341 Lsi-Chr4:3414952 Lsi04g00798 Lsi-Chr4:7544236 5.44E-44 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
Vvi1g1000 . . . . . . . . Cmo04g01645 . . . Car04g01622 . Sed07g2016 . Cpe01g01394 Bhi07g01446 Tan04g0955 Cmetu04g0673 . . . . Cla05g02374 Cam05g2544 Cec05g2576 Cco05g2615 Clacu05g2543 Cmu05g2402 Cre05g2519 . . . . Lsi04g00341 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
       

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
OG0009359 0 2 1 0 1 1 1 1 1 1 1 1 1 1 1 1 1 0 1 1 1 1 1 1 1 1 1 3 2 2 32
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g00341 Lsi_Chr04 FPKM 13.1 9.327537 0.0 0.0 14.299217 15.929214 12.504053 0.0 0.0 0.248893