Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g01460 ATGGAGATTGCTTTAGCCACCCAGTCATGGGTGGAGTATGAGCTTGACGCTTGGTTATGCTCTGAAATGGAAAATCTGTCTCAGTCCTCAGGTGGACAGTTTCGACCAATTATCCCAGCACAACCAGGCCAGACATTCATTTCATCATCTGCCCAACAGTTCCAGTTAGCAGGGCAGAATATATCTTCATCAAATGTTGGAGGGCCAGCTGGTCAAGTCCAGCCACATCAATATCCTCAATCAATGCCGCAGTTAGTGCCAAGACCAGGCCATCCTAGCTATGTCACTCCTTCGTCCCAGGCTATACAAATGCCTTATGTTCAGACAAGGCCTCTTACTTCTGTTCCACCTCAGCCCCAGCAAAATGTGCATGCACCAAATAATCATATGCATGGCTTGGGTGCTCATGGACTACCTCTTTCTTCACCATATACTTTCCAGCCAATGTCACAAATGCATGCACCCGTTGGTGTTGGTAATAGCCAACCATGGCTATCTTCTGTAAGCCAGACTACAAACCTTGTAGCACCAATAGATCAAGCTAACCAGCATTCTTCTGTTTCTGCCGTAAACCCAGCTGCTAATGCTCCTGTCTTCAATCAGCAGTCTTCATCTGATTGGCAAGAGCATGCATCAGCTGATGGAAGAAGATATTATTACAACAAAAAAACCAAACAGTCTAGTTGGGAGAAGCCATTAGAACTTATGACACCGCTTGAGGAATCATGTATGATCTTTCTAGATATGCATTTATATGCATTTATTGGTTTAGCTTCTTTGGGTTTATTTTCTGTATATACATTCTCTAATAAGAGAGCTGATGCATCAACGGTGTGGAAGGAATTTACGGCTCCAGATGGAAGAAAGTACTATTACAATAAGGTGACGAAAGAATCGAAGTGGACCATGCCAGAAGAACTGAAGTTGGCTCGTGAGCAGGCTCAGAAAGAAGCTGTCCAAGGAACACAAACAGATATAGCTGTTACTACACCTCAACCCACACCTGCTGTTGGTCTCTCCCATGCTGAAACACCAGCAATTTCTTCTATTAACTCTAGCATTTCTCCAACGATATCTGGGGTTGTATCGAGTCCAGTTCCAGTCACTCCTTTTGTTTCTGTATCCAATTCTCCTTCAGTGGTTGTTTCTGGGTCATCAACCATTGCCAGCGCACCCATTGCTTCATCAACTAGTGTGACTGGAACAGTTTCTTCTCAATCTGTTGCTGCTTCTGGAGGTACTGGTCCTCCTGCTGTGGTCCATGCCAATGCTTCGTCAGTGACTCCTTTCGAAAGTCTTGCATCTCAAGATGTCAAGAATCCTGTTGATGGGACTTCCACAGAAGACATTGAGGAAGCAAGGAAGGGAATGGCAGTTGCAGGAAAAGTTAATGAGACCGTTTTAGAGGAAAAATCTGCTGATGATGAACCATTAGTATTTGCCAACAAGCAGGAGGCGAAGAACGCATTTAAAGTGCTTCTGGAATCTGTAAATGTTCAGTCTGATTGGACGTGGGAGCAGGCTATGCGAGAAATAATTAATGACAAAAGATATGGTGCCTTGAAAACTCTTGGTGAGAGGAAGCAAGCATTCCATGAGTGCTCTGGTTCACCTTTTTTCCCCAGCAATTTTTCTTTGCTGCAACAAAGGCAGACCAGACTTTATGATTATTTTGATGAATTTTATTATTTAGGACACAGGAAAAAGTTGGATGCAGAAGAAAGACGCATAAGACAGAAAAAAGCTCGTGAGGAGTTCACCAAGATGTTGGAAGAGTCCAAGGAACTCACATCGTCTACCAGATGGAGCAAAGCTGTTAGTATGTTTGAGAATGATGAGCGGTTCAAAGCTGTTGAACGTTCTAGAGATCGGGAGGATCTCTTTGAAAGCTACATAGTTGAACTTGAGAGGAAGAAAATACATGCAATTACCCTTCTCCAGATATGGACCATTCATACCAATACTCTTAAATTCAGGAAAAAGAAAGGGCTGCAGAGGAACACAAAAAAAATATTGCTGAATATAGGAAATTTCTCGAGTCATGTCAGCAGCCAGTGGCGGAAAGTACAAGATCGGTTGGAAGATGATGAAAGATGCTCACGTCTTGAGAAACTTGATCGCTTGCTTATTTTCCAGGACTATATACTACATAGGACACTGACATTCATGCTTAACCACTTGAAGGAACGTGTTCGACGAATTGAAAGAAAAAACCGCGACGAGTTTCGCAAACTCATGGAAGAACACATTACTGCTGGTGTTCTTACAGCTAAAACATTCTGGCGTGATTACTGTTTGAAGGTTAAGGAGTTGCCTCAGTATCAAGCCGTTGCTTCAAATATATCTGGCTCAACACCAAAGGACTTGTTTGAGGATGTTCTGGAGGAGTTGGAGAATAAGTATCATGAAGAAAAATCTCAGATAAAAGATGTGATGAAGGCAGCGAAGATTACCATCACTTCATCATGGACATTTGATGACTTTAAGGTTGCCATTGAAGAGGGTGGTTCTCTTGCAGTTTCAGATATAAATTTTAAGGATGCCAATATAGGATCCTATAAATCTCTGCTTGTATTTGAGGACTTACTAGAAAGAGCCAAAGAAAAGGAGGAGAAAGAAGCCAAAAGGCGTCAACGTCTGGCTGATGACTTCACAGGACTGCTCCAGTCATTCAAGGAGATTACAACTTCTTCCAACTGGGAGGATAGCAAACAGCTTTTTGAAGAGAATGAAGAGTATAGATCAATTGGGGAAGAGAGCTTTGCGAAGGAAGTTTTTGAGGAATACATCATGCATTTACAAGAAAAGGCAAAAGAAAAGGAACGCAAGCGTGAGGAGGAGAAGGCTAAAAAGGAAAAAGAGCGTGAGGAAAAAGAGAAGCGGAAGGAAAAAGAGCGGAAGGAGAAGGAAAGAGAACGTGAAAAAGAGAAGGGCCGGGTCAAGAAGGATGAAACAGATAGTGAAAATGTAGATGTGATCGATACTCATGTCTACAGAGAAGACAAGAAAAGGGAAAAAGACAAAGATAGGAAACATCGGAAGCGACATCATAGTGCCACTGATGATGGTGGTTCTGATAAAGATGAGAGAGAGGAGTCTAAGAAGTCCCGCAAACATGGTAGTGACCGAAAAAAATCAAGGAAGGCACAAATTAAATCTCTATCTATGTTTCTTGGCAGCATGCATATTCACCTGAATCAGACAGTGAGAATAGGCACAGAAGGCACAAGAGAGATCATCGAGACGGTTCCCGTAGAAATCACGATGAACTTGAAGACGGGGAGCTTGGTGAGGATGGGGAAATTCAATAGTTCTTTGCTCTCCATATCGGGATTTTGCTTCTACGTTTCGGAGGGGCCAGCCATCCACCAGCATGAT 3378 42.78 MEIALATQSWVEYELDAWLCSEMENLSQSSGGQFRPIIPAQPGQTFISSSAQQFQLAGQNISSSNVGGPAGQVQPHQYPQSMPQLVPRPGHPSYVTPSSQAIQMPYVQTRPLTSVPPQPQQNVHAPNNHMHGLGAHGLPLSSPYTFQPMSQMHAPVGVGNSQPWLSSVSQTTNLVAPIDQANQHSSVSAVNPAANAPVFNQQSSSDWQEHASADGRRYYYNKKTKQSSWEKPLELMTPLEESCMIFLDMHLYAFIGLASLGLFSVYTFSNKRADASTVWKEFTAPDGRKYYYNKVTKESKWTMPEELKLAREQAQKEAVQGTQTDIAVTTPQPTPAVGLSHAETPAISSINSSISPTISGVVSSPVPVTPFVSVSNSPSVVVSGSSTIASAPIASSTSVTGTVSSQSVAASGGTGPPAVVHANASSVTPFESLASQDVKNPVDGTSTEDIEEARKGMAVAGKVNETVLEEKSADDEPLVFANKQEAKNAFKVLLESVNVQSDWTWEQAMREIINDKRYGALKTLGERKQAFHECSGSPFFPSNFSLLQQRQTRLYDYFDEFYYLGHRKKLDAEERRIRQKKAREEFTKMLEESKELTSSTRWSKAVSMFENDERFKAVERSRDREDLFESYIVELERKKIHAITLLQIWTIHTNTLKFRKKKGLQRNTKKILLNIGNFSSHVSSQWRKVQDRLEDDERCSRLEKLDRLLIFQDYILHRTLTFMLNHLKERVRRIERKNRDEFRKLMEEHITAGVLTAKTFWRDYCLKVKELPQYQAVASNISGSTPKDLFEDVLEELENKYHEEKSQIKDVMKAAKITITSSWTFDDFKVAIEEGGSLAVSDINFKDANIGSYKSLLVFEDLLERAKEKEEKEAKRRQRLADDFTGLLQSFKEITTSSNWEDSKQLFEENEEYRSIGEESFAKEVFEEYIMHLQEKAKEKERKREEEKAKKEKEREEKEKRKEKERKEKEREREKEKGRVKKDETDSENVDVIDTHVYREDKKREKDKDRKHRKRHHSATDDGGSDKDEREESKKSRKHGSDRKKSRKAQIKSLSMFLGSMHIHLNQTVRIGTEGTREIIETVPVEITMNLKTGSLVRMGKFNSSLLSISGFCFYVSEGPAIHQHD 1126
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 22344929 22358121 + Lsi04G014600.1 Lsi04g01460 661509

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g01460 1126 PANTHER PRE-MRNA-PROCESSING PROTEIN 40B 563 1050 - -
Lsi04g01460 1126 SMART FF_2 483 537 IPR002713 -
Lsi04g01460 1126 SMART FF_2 735 796 IPR002713 -
Lsi04g01460 1126 SMART FF_2 661 717 IPR002713 -
Lsi04g01460 1126 SMART FF_2 579 634 IPR002713 -
Lsi04g01460 1126 SMART FF_2 877 932 IPR002713 -
Lsi04g01460 1126 Pfam WW domain 279 304 IPR001202 GO:0005515
Lsi04g01460 1126 Pfam WW domain 205 232 IPR001202 GO:0005515
Lsi04g01460 1126 MobiDBLite consensus disorder prediction 937 1049 - -
Lsi04g01460 1126 SUPERFAMILY WW domain 278 311 IPR036020 GO:0005515
Lsi04g01460 1126 ProSiteProfiles WW/rsp5/WWP domain profile. 201 234 IPR001202 GO:0005515
Lsi04g01460 1126 SUPERFAMILY FF domain 679 718 IPR036517 -
Lsi04g01460 1126 Coils Coil 787 814 - -
Lsi04g01460 1126 Coils Coil 724 744 - -
Lsi04g01460 1126 PANTHER PRE-MRNA-PROCESSING PROTEIN PRP40 563 1050 IPR039726 GO:0045292
Lsi04g01460 1126 SUPERFAMILY FF domain 728 803 IPR036517 -
Lsi04g01460 1126 CDD WW 205 234 IPR001202 GO:0005515
Lsi04g01460 1126 Gene3D - 200 243 - -
Lsi04g01460 1126 Gene3D - 273 319 - -
Lsi04g01460 1126 Gene3D FF domain 871 945 IPR036517 -
Lsi04g01460 1126 SUPERFAMILY WW domain 206 239 IPR036020 GO:0005515
Lsi04g01460 1126 Pfam FF domain 737 792 IPR002713 -
Lsi04g01460 1126 Pfam FF domain 485 533 IPR002713 -
Lsi04g01460 1126 Pfam FF domain 581 631 IPR002713 -
Lsi04g01460 1126 Pfam FF domain 882 929 IPR002713 -
Lsi04g01460 1126 Gene3D FF domain 666 720 IPR036517 -
Lsi04g01460 1126 Coils Coil 923 986 - -
Lsi04g01460 1126 Gene3D FF domain 482 534 IPR036517 -
Lsi04g01460 1126 ProSiteProfiles FF domain profile. 733 796 IPR002713 -
Lsi04g01460 1126 MobiDBLite consensus disorder prediction 937 1007 - -
Lsi04g01460 1126 ProSiteProfiles WW/rsp5/WWP domain profile. 273 306 IPR001202 GO:0005515
Lsi04g01460 1126 PANTHER PRE-MRNA-PROCESSING PROTEIN PRP40 28 534 IPR039726 GO:0045292
Lsi04g01460 1126 CDD WW 279 306 IPR001202 GO:0005515
Lsi04g01460 1126 SUPERFAMILY FF domain 573 638 IPR036517 -
Lsi04g01460 1126 Gene3D FF domain 576 637 IPR036517 -
Lsi04g01460 1126 MobiDBLite consensus disorder prediction 1016 1038 - -
Lsi04g01460 1126 SMART ww_5 202 234 IPR001202 GO:0005515
Lsi04g01460 1126 SMART ww_5 274 306 IPR001202 GO:0005515
Lsi04g01460 1126 Coils Coil 863 883 - -
Lsi04g01460 1126 Gene3D FF domain 725 809 IPR036517 -
Lsi04g01460 1126 SUPERFAMILY FF domain 475 534 IPR036517 -
Lsi04g01460 1126 SUPERFAMILY FF domain 878 939 IPR036517 -
Lsi04g01460 1126 ProSitePatterns WW/rsp5/WWP domain signature. 207 232 IPR001202 GO:0005515
Lsi04g01460 1126 ProSiteProfiles FF domain profile. 483 537 IPR002713 -
Lsi04g01460 1126 ProSiteProfiles FF domain profile. 579 634 IPR002713 -
Lsi04g01460 1126 ProSiteProfiles FF domain profile. 877 932 IPR002713 -
Lsi04g01460 1126 PANTHER PRE-MRNA-PROCESSING PROTEIN 40B 28 534 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g01460 K12821 PRPF40, PRP40; pre-mRNA-processing factor 40 - csv:101203479 1403.27
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi03g01009 Lsi-Chr3:19378767 Lsi04g01460 Lsi-Chr4:22344929 1.75E-122 dispersed
Lsi04g01460 Lsi-Chr4:22344929 Lsi09g01506 Lsi-Chr9:23102767 2.41E-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
Vvi18g614 . Blo12g00995 . Bda03g00163 . Bpe04g00145 . . . . Cma01g01771 Cma09g00307 Car01g01380 . . Cpe06g00216 . . . . . . . . . . . . . . . . . Cone17ag0900 Cone20ag0242 Lsi04g01460 Csa04g02500 . . . . . . . Bpe05g00461 . . Sed13g1825 Cmo01g01829 Cmo09g00308 . . . Car09g00259 . Cpe02g00234 Bhi09g03198 Tan01g4668 Cmetu07g0441 . Hepe01g1848 Mch11g0381 . . . . . . . . . . Chy07g00208 .
       

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
OG0007062 1 1 1 1 1 1 2 1 1 1 1 1 2 1 1 2 1 2 2 1 1 1 1 1 1 1 1 2 2 1 37
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g01460 Lsi_Chr04 FPKM 5.809197 6.96507 10.146624 10.9585 11.603354 9.568205 10.886305 15.033713 15.596362 13.241425