Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi05g00560 ATGGCCGAACCCATCGAGGAAAACCTGGTTGTTGATGCCGAACCCACCGCCGACAAGAGGCCAATTGAGAATAATGGGAGTGATGAACTTGCGGAGCCTCAGTTGAGGAAGAAGCCCCGGAATGGTTGCGACTTGGGTCCGAATCTAAGAAGGGTTGCTGAGATTGTGTTGGTTATGTCCACTATGACGGCGTTGCGTGCTGGGAAGAAGCCGAGTGATGCCGAGGTTGAATTAATGGCTGAGGCTAGGGCTAAGCTGGTTCAGATTTGTGAAGGATTGGCTCCTAAAGATATTGTGGGAAGGGAAGGTATTAGCTCTCTGATTGAAGATTTGGGGCTGAATGGCAATGCTAGGGATCAGAAGTTAGGGTTTCGGGGTCCCAGGTTGACGATAGCGGAGAAGTTGGCACAGGCAAAGAAGAAGATGGAAGATTCCAAGAAATATGTCCCACCACCGGGTTATGGATCCCATCCAACCCAAAAAAATTTCAGTTCATCAGTTGAGAGCCGTGGGCCATTGCCTACAGTACGGATGTTTCCCTCAGACAAATCAAGTCCTGTCCCGACTTCTGTGGGAGGGACTGCGGGCACCCTGCCTCCAGGTCATGTTTCTGTCGCTGGTTCTACATCTATACAGGTTCAAGCACAACTACCGAGCAATGAAGTCAGAGCACATATTATCTCAAGTGGTTATCCTATTGGTCATCAAGGAAGGGATTCTTCTTCACTCTTGCATGGCATTGAAAGACCATTAAATGGGACATATGGATCTCAAATGCAAGTTAACTCTTTGGTAAATCATCCTCTGGTGAGTGCTCCAACCTGGTCTGCTCAAACTCAATCCGCTGTATCAGCTAAAGGTGGGCCAGAGCACAAGTTTTCCAATCATTCTGCTATTAATGTTAATGCTCAGGGAACCACAGACTCCAGAGCATTAAGATCGTCTTCTCAAGCAGCAAGGGACCAGAGCTTTAGACCTCCTATTTCTCAAACTGGGACAGGAAATATTACTGGTTTGCAGCCGCCTTTACAGAGCATGAATTTTATGCAAGGACCTTCACTTTCTAATAACCACAATGAAATTGTCAAAATTATTCAGAAGCTCTTACAACCACAGCTTCCTGATCATCCTACTTGGAATCCTCCTTCAAGAGATTACATGAACAAGGCTGTGACCTGCCAAACTTGTCAAGTTACCATTAATGAGATTGATACTGTACTTATATGCGATGCTTGTGAGAAAGGATATCACTTGAAATGTGTACAGTCACCTAATCAGAGAGCAATTCCTAGAGGGGAATGGCACTGCCCAAGATGCTTAACTATAAGCAGTGGGAAGCCTTTACCCCCTAAATATGGGCGTGTCATGAGGAGTAACCCGCCACCAAAATTATCGGTCAATACCAGTGGAACTCCGCCACCAGAGAAGAGATCAGGAGCCGTAGAACAGAAGGTCAGTAGTGCTGGTCAGCTGAAGGTAGTTTCTAATGGAGGTTCAGATTTGCCAAGTCCTCAGCCTGCTGACTATGGAAGCAATGCCAATGAATCATCTGGTACCAAAATTCCATTTGTGGAAGAGATTTATGGAAATAATTTTTTACCAATTAGGAAAGACGTAGATGAGAAACCAACCTCTTCGACTTCCTTGAATACCCCAGCCAAATCCTTGGGGCTGGTTTGTGAACCCTCTTCTGCTGAGTTATCAAGTGAAATATCTGCTCAGCACAGTAAAAGTTCTCAAGCATCAATAGGTGAAGATACATCCTCAGCAAAAGCAGAGCCTCCAGAAGAATCCCATACAACGGCTGACAATTCTAGTAACCCTAAACCCCCCGACATTCCTCAAATTGTTGATCAGCAAAGGGCTTCTGAAGGTCCAGAGATACCTTCCTCAACAGCAAGTGCTCATGATACTTCAAATGTGAAGAAAGATGGCCATGAAGTTGTGCAGGAGAATAATGTTGAAAATTTTGAAGCTAGCATCACAAATACAGAGCAGGCCGGGACTTCTTCCAATGACTTTCATAATGTTGAATGGATTGGAAACCCACATCAGATTTTAGATATGAGGGCATATTACAAATCCTGTCGAGTTGATGGTGTTACATATAAAGTTGAAGAATTTGCACTTTTTCAATCCAGCAACGGGAAATTGATGCCCTATAGGCTTCAGGCGAGCAAATTGTTAAACATATCCTTCAGCCATGAATGTGAAAGTGGGTTGAACTGGGCTATTCTTAACAAGTGTTACTTTTACGAGGACTTGCCAAAGGAAGTTGCCCATCTCCGCTCATGCTCCCCTGAACAAGATGAGGTATATACATCCGATGGCTATATTTGTTTAGATGTGGGCTTAATTCGAGGCCCATGTGAAGTTCTTCCTGTTGCCAAGTATAACGAAGAACTTGAAAGACGAAAACAATTGGGTCTTGGGGCAGATAATGGAATAAAGCCAATTTTCCTGTGCAAGTACGTCGATTTCCTCGGACAACTCTATACTCCTTTTGTTGCTTTTGGAGACCGATATCAAACTCTTCTCCTTTATTGA 2547 44.41 MAEPIEENLVVDAEPTADKRPIENNGSDELAEPQLRKKPRNGCDLGPNLRRVAEIVLVMSTMTALRAGKKPSDAEVELMAEARAKLVQICEGLAPKDIVGREGISSLIEDLGLNGNARDQKLGFRGPRLTIAEKLAQAKKKMEDSKKYVPPPGYGSHPTQKNFSSSVESRGPLPTVRMFPSDKSSPVPTSVGGTAGTLPPGHVSVAGSTSIQVQAQLPSNEVRAHIISSGYPIGHQGRDSSSLLHGIERPLNGTYGSQMQVNSLVNHPLVSAPTWSAQTQSAVSAKGGPEHKFSNHSAINVNAQGTTDSRALRSSSQAARDQSFRPPISQTGTGNITGLQPPLQSMNFMQGPSLSNNHNEIVKIIQKLLQPQLPDHPTWNPPSRDYMNKAVTCQTCQVTINEIDTVLICDACEKGYHLKCVQSPNQRAIPRGEWHCPRCLTISSGKPLPPKYGRVMRSNPPPKLSVNTSGTPPPEKRSGAVEQKVSSAGQLKVVSNGGSDLPSPQPADYGSNANESSGTKIPFVEEIYGNNFLPIRKDVDEKPTSSTSLNTPAKSLGLVCEPSSAELSSEISAQHSKSSQASIGEDTSSAKAEPPEESHTTADNSSNPKPPDIPQIVDQQRASEGPEIPSSTASAHDTSNVKKDGHEVVQENNVENFEASITNTEQAGTSSNDFHNVEWIGNPHQILDMRAYYKSCRVDGVTYKVEEFALFQSSNGKLMPYRLQASKLLNISFSHECESGLNWAILNKCYFYEDLPKEVAHLRSCSPEQDEVYTSDGYICLDVGLIRGPCEVLPVAKYNEELERRKQLGLGADNGIKPIFLCKYVDFLGQLYTPFVAFGDRYQTLLLY 848
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
5 6949499 6960994 - Lsi05G005600.1 Lsi05g00560 663052

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi05g00560 848 SMART PHD_3 392 440 IPR001965 -
Lsi05g00560 848 MobiDBLite consensus disorder prediction 157 171 - -
Lsi05g00560 848 MobiDBLite consensus disorder prediction 483 517 - -
Lsi05g00560 848 MobiDBLite consensus disorder prediction 567 642 - -
Lsi05g00560 848 MobiDBLite consensus disorder prediction 306 340 - -
Lsi05g00560 848 SUPERFAMILY FYVE/PHD zinc finger 383 448 IPR011011 -
Lsi05g00560 848 MobiDBLite consensus disorder prediction 624 638 - -
Lsi05g00560 848 Pfam PHD-finger 393 440 IPR019787 -
Lsi05g00560 848 PANTHER RING/FYVE/PHD ZINC FINGER SUPERFAMILY PROTEIN 13 825 - -
Lsi05g00560 848 MobiDBLite consensus disorder prediction 1 43 - -
Lsi05g00560 848 MobiDBLite consensus disorder prediction 567 587 - -
Lsi05g00560 848 ProSitePatterns Zinc finger PHD-type signature. 393 439 IPR019786 -
Lsi05g00560 848 Gene3D - 681 825 IPR043151 -
Lsi05g00560 848 PANTHER RING/FYVE/PHD ZINC FINGER SUPERFAMILY PROTEIN 13 825 - -
Lsi05g00560 848 Gene3D Zinc/RING finger domain, C3HC4 (zinc finger) 381 454 IPR013083 -
Lsi05g00560 848 ProSiteProfiles Zinc finger PHD-type profile. 390 442 IPR019787 -
Lsi05g00560 848 MobiDBLite consensus disorder prediction 12 39 - -
Lsi05g00560 848 MobiDBLite consensus disorder prediction 141 191 - -
Lsi05g00560 848 MobiDBLite consensus disorder prediction 599 613 - -
Lsi05g00560 848 MobiDBLite consensus disorder prediction 450 517 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi05g00560 - - - csv:101222588 1370.91
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi05g00560 Lsi-Chr5:6949499 Lsi01g00030 Lsi-Chr1:336558 1.58E-06 dispersed
       

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
Vvi19g580 . . . . . . . . Cmo16g00950 . . . . . . . . . . . . . . . Cla10g00470 Cam10g0457 Cec10g0479 Cco10g0466 Clacu10g0477 Cmu10g1306 Cre10g0711 . . Cone14ag1182 Cone15ag1199 . Csa03g00472 . Cme06g02834 . Blo10g00851 . Bda12g00937 . . . . Sed08g2972 . . . . . . . . Bhi11g00572 Tan01g1753 Cmetu06g0787 . Hepe06g0022 Mch10g1340 . . . . . . . . Lsi05g00560 . Chy06g01850 .
       

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
OG0008595 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 2 1 1 1 1 1 1 1 1 1 3 2 2 35
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
25317 PF00628 PHD 2.50E-08 CL0390 Lsi TR
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi05g00560 Lsi_Chr05 FPKM 2.785114 4.753935 6.364155 6.315878 19.424276 19.821966 19.223076 12.825397 12.378178 12.715361