Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g00542 GTTCTGAAATCGCTTCTCCGGCTCTTTCCTTCTTCTCTAGTCTCTAGGGCACAACGTACTCCAATTACTTGTTCGTCAGAAAATCTGAAAGATAAGCCTGGAAGCTTTCAACTTCCTTGCGATCTTTTTTCTACTTCAATGGCGGATTCTTCCTCTTCCCCTGCGACTCTCGATTCAAATCCTCAAGCTGCCGAGCCCGAAAATCCCAATTCCCAGGCCAACAAACCCGAATCTACCGCTTCTTCTTTTCCTCCACCGCAATCGCTACCACCATCGTCGCTTTCTGTCGGAATAAACCCTACTTTGCATCCACCCTTAGTGTCAACGCCGCAACCACCTCCTTCTCTATCGTATGCCCCCTCGCCCTTATCCGGTACGGTGGCTGTTCCTCCGACGGCTCCGTCTTTCCGGCCGGTGCCTCTCTCAGCTCATCACTTCTCACCCATGCCCGGCACTGGCATGCTGAACCCAAGCTATTCAAACCCTGGGGTTCAGCCTCCGGGGGTTAGCTCGGTTGCGGCGCCTGCTCCTGGTATGGCAAGTGGCGGCACGGGAGCAGTTCCAGTTCCAGTGCCACAACCGATGATGGCTTATCAAGTTCCACCGGGTCAGGTTCCGAATCCGGTGATGAGGCCGTACGCCACTATGCCAAACGGTTTCGCAGCTGTGCCAACTGCTACTCCTCAAGGGGCCTTTCCTCTCCCTGGTGGGTTTTCTCTATCCCTATTGTTTCTAACATTTCAATTGCCAATTTTGACGCAAAGTAAAAGTTCCGCGCATGTTATGATGCCTCGGAAAGAGTTTGCAAAAATAAGTTCGGAGTCTATTAAAAATTTTCGTATGAAGGGTATCGATGACAGGATGTTTTCTCCTACAGCGTCTTGTCTCTTGATTGAATACGGTGAGAAAGGTTGGAAGGCTTCATATTGCTTAGAGAACTCCCAACTACAACTCCTTTTTTGGTATGGTCATTCATATTTGTCTGTTATTCTTGTTTGCTTTCAGCATGTTATATTGGATACTGTCCCTGGATATTTGAATTGCCAGAAGCAGACCATGTTAGCACCTGAGTGTTCGTTCGCCTTGTTTCTAAGAACATGCAAATTTATTTTTTTTCAATCGATCTGTGTGAATGAGTTGCTCAAAGCGTTGTGCTTCTTAAATCATAAAATTCTGCTTTTGATGGACGGGATTTTGAGAAGGCTGCAGTTCAAGAGTAAGTTTCCATTCCTATGCTGCCATCGTTTATATGCTTTGGATTTTGGTAATGGCATTTATGAATCCTCATCAATTATTCTTCCATATACTTTAAGCACCATTAGATGGTTAGATGTGAGTAGAGTTCCACGTTTCCCTTCTCCATATCCAGTTATGATTAGGACGCCTTTTCATCCACGGCCACCTGGTGCTATGGGCATGGTTCCAGCAATGCCACGACCTCCTATTCCTGGGATTCCTGGTGTGCGTCCAATCATCCCTCCTGTGGTTAGGCCTGCTGTTCTCCCAAGTGTTACACCAGCCGAACAACCCCAAACTACTATTTATATTGGCCGAATTGCACAATCAGTGGATAATGATTTCATGCTGTCCCTTCTTCAGCTATGTGGACCAGTGAAGAGCTGGAAACGTGCCCAAAATCCTTCGGATGGAACTCCTAGAACCTTTGGATTCTGCGAGTTTGAGTCTGCTGAAGGCGTTCTTCGTGCGCTACGATTACTGACAAAGTTAAACATTGATGGACAAGAACTAGTGATGACAGACATTACTTTTTTTCAACCTAGAAATGCGTTAAAAGGTACTCAAGCAACAAGAGATTATCTGAAGCGTTATGTTGAAAAGAAAGCTGAGAATTCAAAGAAACTGAAAGAAACACAAGTTTCAGAGACTAAAGAAGAAGAAGCAGCCACTACGAATGTGGCTAAAAATGAAACTTCAAAGCCCTCTGCAGAGGATTCAAAGGAAGATCACGATTCAGGGGAAAAAGATCTTGACATTGCCCGTTCTGCAGTTTTAAGCGATGAAGATAGAGATGCAGATCGTGAGGCGTCAGAAAAGCTTACAAATGCACTGGAGGAGAGGTTGAAGTCTAGACCTCTGCCACCACCTCCTCTTCTGACAACCGCTGGTGTCTCTGGTAACTCAAGTGTGGAACCATCTGCTAAACTGAAAGAGGGTGAAGCTGACGCTGATATTTTGAAACCTGATGCACCTGATGATAGAAATGATGATGACACAACTAGTGACCATAAACAAACTAGTGAGCGTGACAAGCCTGACACAAGCTCACCTGACAGAAGTAGAAGGTATGACAGGAGAAGTAGAGAAAGAGACAGGGAGAGGGATCTGAAAAGGGATAAGGAGCGGGAAGTTGAGAGATATGAAAGAGAGACAGAGCGGGAGCGAGCTAGGAAAGAGAGGGAACAAAGAAGAAAGTTTGAGGAGGCCGAGCGACAGTATGAAGAATGTCTCAAAGAGTGGGAATATCGAGAAAGAGAGAGAGAAAAGCAGAGGCAGTATGAGAAGGAGAGGGAGAAAGAGAAAGAGCGTAAAAGAAAGAAAGAGATATTGTATGATGAAGATGATGAGGATGACGATTCAAGAAGAAAATGGCGCAGAGGTGCTCTGGAGGAAAAGAGGAAGAAAAGGTCTAGAGAAAAGGAAGATGATTCGGTCGATAGAGAGAGAGAGGAAGGAGAAATTGCTGAGGCCAAGAGGAAGGCTGAGGAGGAACAGCTGCAGAAGCAGAAAGACCCACTGAAACTTTTATCTGGTCAGAAGATGAGTGTCAACGAGAAAACTGTTCTTGCCGAAGAATCCGCTAATGAGATTAAAGTTATGGCTTCTGAACGTGAATCTGAGCTTGACTCTAGCTGTGATAACCATTTAGGGGATGGGATCTTACAAAATGGTAGTGGTGATGAATTAAATACGATACCATCAGAGACTCGACAGAGTGGAGGCTTGCCTGCAAAAAGGTTAGGATTTGGTTTGGTGGGATCTGGAAAACGGACTGCTGTACTTTCAGTTTTTCATGAGGAGGAGGATGATGAAGCACAGAAAGAGAAAAAGATGAGGCCGCTGGTTCCAATTGATTACTCAGCTGAGGAACTCCAGGCTGTGCAACCTGCCAGTACTGGGGCTTTACCGCCAAATTTAGCTGCAGCAGCCGAGTTTGCAAAACGTATATCTAATGTTAATTCCAAAGAAGAGAAGCCTGATGGTGAAAGGGAGCGAGGAAGGCGTTCCAGTGAAAAGTCAGGTCATAGAGATCGAAATGATGAGGATACCTATCGCAGCAAAGATGAGAACAAGACAATAGACAGAGATAGGGAGCGAGACCATGTTTTGGATAAAGTAAAAACACCAGATAACAAAAAGCTTTTGGATGCGAAACAGTTGATTGATATGATTCCAAAGACGAAAGAGGAATTATTCTCATATGATATAAATTGGGCTATTTACGAAAAGGTACCGAGTCTTACTGATTTTCTTTTTCTTATTGTGCTTGTGCATAACATTAATAATACTGGAAATAAGGATAACACTGCTGTCATATCATTGACAAGAAAATATTTTTCGGTAACTTTTTCTGAAACTTTAACGCATCATTATGCTTATTTGCAGCATGCACTACATGAGAGAATGAGACCGTGGATTTCAAAAAAGATAACAGAGTTTTTGGGGGAGGAGGAAACCACTCTCGTGGATTACATAGTTTCAAGTACTCAGGAACACGTAAAGGCATCTCAGATGCTGGAGCTGCTTCAGTCAATTTTGGATGAAGAAGCTGAAATGTTTGTTCTGAAGATGTGGAGAATGCTCATCTTCGAAATAAAAAAGGTAGAGACTGGTCTAGCTTTCAGAACAAAAGCA 3873 44.2 VLKSLLRLFPSSLVSRAQRTPITCSSENLKDKPGSFQLPCDLFSTSMADSSSSPATLDSNPQAAEPENPNSQANKPESTASSFPPPQSLPPSSLSVGINPTLHPPLVSTPQPPPSLSYAPSPLSGTVAVPPTAPSFRPVPLSAHHFSPMPGTGMLNPSYSNPGVQPPGVSSVAAPAPGMASGGTGAVPVPVPQPMMAYQVPPGQVPNPVMRPYATMPNGFAAVPTATPQGAFPLPGGFSLSLLFLTFQLPILTQSKSSAHVMMPRKEFAKISSESIKNFRMKGIDDRMFSPTASCLLIEYGEKGWKASYCLENSQLQLLFWYGHSYLSVILVCFQHVILDTVPGYLNCQKQTMLAPECSFALFLRTCKFIFFQSICVNELLKALCFLNHKILLLMDGILRRLQFKSKFPFLCCHRLYALDFGNGIYESSSIILPYTLSTIRWLDVSRVPRFPSPYPVMIRTPFHPRPPGAMGMVPAMPRPPIPGIPGVRPIIPPVVRPAVLPSVTPAEQPQTTIYIGRIAQSVDNDFMLSLLQLCGPVKSWKRAQNPSDGTPRTFGFCEFESAEGVLRALRLLTKLNIDGQELVMTDITFFQPRNALKGTQATRDYLKRYVEKKAENSKKLKETQVSETKEEEAATTNVAKNETSKPSAEDSKEDHDSGEKDLDIARSAVLSDEDRDADREASEKLTNALEERLKSRPLPPPPLLTTAGVSGNSSVEPSAKLKEGEADADILKPDAPDDRNDDDTTSDHKQTSERDKPDTSSPDRSRRYDRRSRERDRERDLKRDKEREVERYERETERERARKEREQRRKFEEAERQYEECLKEWEYREREREKQRQYEKEREKEKERKRKKEILYDEDDEDDDSRRKWRRGALEEKRKKRSREKEDDSVDREREEGEIAEAKRKAEEEQLQKQKDPLKLLSGQKMSVNEKTVLAEESANEIKVMASERESELDSSCDNHLGDGILQNGSGDELNTIPSETRQSGGLPAKRLGFGLVGSGKRTAVLSVFHEEEDDEAQKEKKMRPLVPIDYSAEELQAVQPASTGALPPNLAAAAEFAKRISNVNSKEEKPDGERERGRRSSEKSGHRDRNDEDTYRSKDENKTIDRDRERDHVLDKVKTPDNKKLLDAKQLIDMIPKTKEELFSYDINWAIYEKVPSLTDFLFLIVLVHNINNTGNKDNTAVISLTRKYFSVTFSETLTHHYAYLQHALHERMRPWISKKITEFLGEEETTLVDYIVSSTQEHVKASQMLELLQSILDEEAEMFVLKMWRMLIFEIKKVETGLAFRTKA 1291
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 4990777 4997440 - Lsi04G005420.1 Lsi04g00542 660591

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g00542 1291 Coils Coil 612 632 - -
Lsi04g00542 1291 CDD RRM_RBM25 512 607 IPR034268 -
Lsi04g00542 1291 MobiDBLite consensus disorder prediction 47 82 - -
Lsi04g00542 1291 PANTHER SPLICING FACTOR PWI DOMAIN-CONTAINING PROTEIN / RNA RECOGNITION MOTIF (RRM)-CONTAINING PROTEIN 447 1156 - -
Lsi04g00542 1291 MobiDBLite consensus disorder prediction 1063 1109 - -
Lsi04g00542 1291 Pfam PWI domain 1214 1277 IPR002483 GO:0006397
Lsi04g00542 1291 MobiDBLite consensus disorder prediction 617 817 - -
Lsi04g00542 1291 ProSiteProfiles PWI domain profile. 1193 1291 IPR002483 GO:0006397
Lsi04g00542 1291 PANTHER SPLICING FACTOR PWI DOMAIN-CONTAINING PROTEIN / RNA RECOGNITION MOTIF (RRM)-CONTAINING PROTEIN 1206 1290 - -
Lsi04g00542 1291 SUPERFAMILY RNA-binding domain, RBD 469 584 IPR035979 GO:0003676
Lsi04g00542 1291 SMART pwi_2 1207 1280 IPR002483 GO:0006397
Lsi04g00542 1291 MobiDBLite consensus disorder prediction 829 924 - -
Lsi04g00542 1291 Gene3D - 496 599 IPR012677 -
Lsi04g00542 1291 Coils Coil 776 825 - -
Lsi04g00542 1291 MobiDBLite consensus disorder prediction 105 119 - -
Lsi04g00542 1291 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 512 604 IPR000504 GO:0003723
Lsi04g00542 1291 MobiDBLite consensus disorder prediction 721 817 - -
Lsi04g00542 1291 SUPERFAMILY PWI domain 1212 1279 IPR036483 GO:0006397
Lsi04g00542 1291 MobiDBLite consensus disorder prediction 970 984 - -
Lsi04g00542 1291 MobiDBLite consensus disorder prediction 946 996 - -
Lsi04g00542 1291 MobiDBLite consensus disorder prediction 646 692 - -
Lsi04g00542 1291 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 514 583 IPR000504 GO:0003723
Lsi04g00542 1291 MobiDBLite consensus disorder prediction 829 916 - -
Lsi04g00542 1291 Coils Coil 891 913 - -
Lsi04g00542 1291 PANTHER SPLICING FACTOR PWI DOMAIN-CONTAINING PROTEIN / RNA RECOGNITION MOTIF (RRM)-CONTAINING PROTEIN 1206 1290 - -
Lsi04g00542 1291 Gene3D PWI domain 1118 1286 - -
Lsi04g00542 1291 Coils Coil 829 856 - -
Lsi04g00542 1291 MobiDBLite consensus disorder prediction 617 637 - -
Lsi04g00542 1291 MobiDBLite consensus disorder prediction 47 123 - -
Lsi04g00542 1291 PANTHER SPLICING FACTOR PWI DOMAIN-CONTAINING PROTEIN / RNA RECOGNITION MOTIF (RRM)-CONTAINING PROTEIN 447 1156 - -
Lsi04g00542 1291 SMART rrm1_1 513 586 IPR000504 GO:0003723
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g00542 K12822 RBM25, S164; RNA-binding protein 25 - csv:101214372 1002.66
       

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
Vvi1g730 . . . . . . Bma14g01788 . . Cmo18g00807 . Cma18g00802 . Car18g00734 . Cpe09g00500 Cpe01g01526 Bhi07g01719 Tan04g1224 Cmetu10g0122 Lac13g0206 Hepe10g1646 . . Cla05g02535 Cam05g2726 Cec05g2756 Cco05g2797 Clacu05g2727 Cmu05g2580 Cre05g2694 Cone13ag1035 Cone19ag1026 . . Lsi04g00542 Csa05g02342 Chy10g00909 Cme10g00517 . Blo11g00910 Bda07g01597 . . . . . . . . Cma04g01727 . Car04g01759 . . . . . . . . . . . . . . . . . . . . .
       

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
OG0003580 1 6 1 1 1 1 2 1 1 1 1 1 2 1 1 2 1 2 2 1 1 1 2 1 1 1 1 3 5 1 47
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g00542 Lsi_Chr04 FPKM 8.098338 8.952051 10.078954 10.259504 6.912337 8.051373 7.298135 9.116878 10.146525 11.207807