Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi05g00527 ATGATTGATTGTTTGGTAATAGAAAAAAAAAAAAAAAGAAAAATGGAATCAGATCTTGGCAAGCTCTTCATTGGCGGAATTTCGTGGGATACTGATGAAGAGCGTCTTAGGGAATATTTTGGCAACTATGGCGAAGTGGTCGAGGCTGTGATCATGAGGGATCGCACCACTGGTCGTGCTCGTGGCTTTGGCTTTGTTGTCTTTGCAGATCCTGCTGTTGCCGAGCGAGTCATTTTGGAGAAGCACGTCATCGATGGTCGAACTGTTGAAGCTAAAAAGGCTGTTCCAAAGGATGATCAGAACATGTTGAATAGAAATAGTGGTAGCATTCATGGTTCTCCTAGCTCGGGGCGAACGAAAAAGATTTTCGTTGGAGGTTTAGCTTCGACGGTCACTGAGGCTGACTTTCAGAAGTATTTTGATCAGTTTGGAACAATCACTGATGTTGTTGTTATGTATGATCACAGCACCCAAAGGCCAAGGGGATTTGGCTTCATTACTTATGATTCGGAGGAGTCCGTCGACCGTGTGCTGCATAAAACTTTTCATGAACTCAATGGAAAGATGGTTGAGGTTAAGAGAGCAATCCCAAAAGAGCTAACCCCAGGGCCCAACCGGAGCCCTCTTGTAGGATATAACTATGGTATGAGTAGGCCTAGTGGTTTTCTTAACAGCTATACTCAAGGCTATAATATGAGTCCTTTGGGAGGTTACGGAGTCCGGGCAGATGGTAGGTTGAGTCCAATAATTAGCAGTCGAACTGGGGTTCCTCATTTTGGTACTGCTAATTATGGAGTGGGTGTGAATTTGGAGCAAGGGATGAGACAAGGCTATGGCAGGACTTTGAACATTATGAATAGTCAAGCACAGGAACAAATGTTGAATTCCTATTATAATGGCAATTCAAATAGGTACATTGCCCCGATTGGCTACAGTGGGGGCAATGGAAGAGGCGATTCTCCCTTAAGCTCGAGTACGTGGAATGTTTGGGGAAATGGAAGTATGAGCACTGCCATGAACTCTTCTGGCCCTGGTGCTTTCTCTGGCTCTGGAGCGGGGAACTTCAGAGTGGCATATGGAAACAACGATGATAATTGGAGTTCGCCTGCTGTTGTTAATCATGTTGGAGGGAATGCTCTTGGCTATACCAATAATGGTTATGCAATTGGAGACAATGGCTTTGGGTTCAGGGGAGGCTATGGAAGAAATGGAGTTGTCTCAAATGTGGCAACACGAAAAGCATTAGTTGAAACAACCAATGGTTATGAGAGGTCATATAGGGATTTATATCGTGATGAAGCAGTGCACGATGATTCGACTTGGCAGTCTGCCGCTCCTGAACTGGATGGTTCTGTATCTTTTGGTTATGGTCTTGGTAACCTTGCTTCAGATGATCCAGCCAAAAGTTCCGAGAGTTTTCTTGCAAGTTATGATGTTTCAAGCAGACAATCAACTAGAGGTAAACACACTTTACTTTGTTCTATTTATAGCCTTCGTTAA 1500 44.0 MIDCLVIEKKKKRKMESDLGKLFIGGISWDTDEERLREYFGNYGEVVEAVIMRDRTTGRARGFGFVVFADPAVAERVILEKHVIDGRTVEAKKAVPKDDQNMLNRNSGSIHGSPSSGRTKKIFVGGLASTVTEADFQKYFDQFGTITDVVVMYDHSTQRPRGFGFITYDSEESVDRVLHKTFHELNGKMVEVKRAIPKELTPGPNRSPLVGYNYGMSRPSGFLNSYTQGYNMSPLGGYGVRADGRLSPIISSRTGVPHFGTANYGVGVNLEQGMRQGYGRTLNIMNSQAQEQMLNSYYNGNSNRYIAPIGYSGGNGRGDSPLSSSTWNVWGNGSMSTAMNSSGPGAFSGSGAGNFRVAYGNNDDNWSSPAVVNHVGGNALGYTNNGYAIGDNGFGFRGGYGRNGVVSNVATRKALVETTNGYERSYRDLYRDEAVHDDSTWQSAAPELDGSVSFGYGLGNLASDDPAKSSESFLASYDVSSRQSTRGKHTLLCSIYSLR 499
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
5 6601183 6604350 + Lsi05G005270.1 Lsi05g00527 663019

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi05g00527 499 SUPERFAMILY RNA-binding domain, RBD 15 117 IPR035979 GO:0003676
Lsi05g00527 499 CDD RRM1_hnRNPA_hnRNPD_like 22 92 - -
Lsi05g00527 499 SUPERFAMILY RNA-binding domain, RBD 118 219 IPR035979 GO:0003676
Lsi05g00527 499 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 120 197 IPR000504 GO:0003723
Lsi05g00527 499 PANTHER RNA-BINDING PROTEIN MUSASHI HOMOLOG RBP6 15 488 - -
Lsi05g00527 499 SMART rrm1_1 21 92 IPR000504 GO:0003723
Lsi05g00527 499 SMART rrm1_1 121 193 IPR000504 GO:0003723
Lsi05g00527 499 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 122 180 IPR000504 GO:0003723
Lsi05g00527 499 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 22 88 IPR000504 GO:0003723
Lsi05g00527 499 Gene3D - 117 203 IPR012677 -
Lsi05g00527 499 PANTHER RNA-BINDING (RRM/RBD/RNP MOTIFS) FAMILY PROTEIN 15 488 - -
Lsi05g00527 499 Gene3D - 20 102 IPR012677 -
Lsi05g00527 499 CDD RRM2_DAZAP1 118 197 IPR034131 GO:0003723
Lsi05g00527 499 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 20 96 IPR000504 GO:0003723
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi05g00527 K14411 MSI; RNA-binding protein Musashi - csv:101220541 895.19
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi02g01124 Lsi-Chr2:13120542 Lsi05g00527 Lsi-Chr5:6601183 2.98E-159 dispersed
Lsi05g00527 Lsi-Chr5:6601183 Lsi09g01204 Lsi-Chr9:19259669 1.31E-79 dispersed
Lsi10g00562 Lsi-Chr10:8239918 Lsi05g00527 Lsi-Chr5:6601183 1.86E-10 dispersed
Lsi03g01352 Lsi-Chr3:24412936 Lsi05g00527 Lsi-Chr5:6601183 6.60E-51 transposed
Lsi05g01044 Lsi-Chr5:17964488 Lsi05g00527 Lsi-Chr5:6601183 3.82E-14 transposed
Lsi08g00660 Lsi-Chr8:14945716 Lsi05g00527 Lsi-Chr5:6601183 1.34E-07 transposed
Lsi04g01457 Lsi-Chr4:22334896 Lsi05g00527 Lsi-Chr5:6601183 2.56E-14 transposed
Lsi10g00060 Lsi-Chr10:992150 Lsi05g00527 Lsi-Chr5:6601183 2.25E-174 wgd
       

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
Vvi19g609 . . . . Bpe09g00137 . Bma10g00587 Bma13g01106 Cmo16g00980 Cmo06g00879 . . . . . . . . . . . . . . Cla10g00435 Cam10g0434 Cec10g0456 Cco10g0445 Clacu10g0442 Cmu10g1273 Cre10g0689 Cone6ag0030 Cone9ag0029 Cone14ag1200 Cone15ag1220 . Csa03g00443 . Cme06g02800 Blo07g00874 . Bda05g00687 Bda12g00948 . Bpe03g00761 . . . . . . Cma16g00941 . Car16g00905 Cpe14g00765 . Bhi11g00503 Tan01g1803 . . . . . . . . . . . . Lsi05g00527 . Chy06g01874 .
       

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
OG0003655 1 5 1 1 2 1 2 1 1 1 1 1 2 1 1 2 1 4 1 1 1 1 1 1 1 1 0 4 3 2 46
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi05g00527 Lsi_Chr05 FPKM 0.234973 0.205015 0.377858 0.595904 40.473171 43.746986 37.818367 0.0 0.0 0.173192