Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi08g00243 ATGTATATTGGTGGATGGGCTGTTGTCATGCCATATGCGAACGATTTGCTTCAGCTATTCCAGCCATTTGGTGTCATTACTAAGCTTGTGATGCTTCGTGCTAAAAATCAGGCACTTATGCAGATGCAAGATGTTCCCTCTGCAGTTAATGCTTTGCAGTTCTTTGCAAATGTTCAACCAAGCATTAGGGGGAGGAATGTTTATGTCCAGTTTTCATCACATCAAGAGCTAACTACAGCAGATCAAAATGCTCAAGGACGAGGAGATGAGCCAAATCGAATACTCTTAGTCACAATCCATCACATGCTATATCCCATTACAGTGGAAGTGCTGCATCAAGTGTTTTTCCCACATGGATTTGTGGAGAAGATCGTGACGTTTCAGAAGTCAGCTGGTTTTCAGGCTCTCATTCAGTATCAAACTCGCCAATGTGCTGTTTCTGCTAGGACTGCACTACAGGGACGTAATATATATGATGGTTGCTGTCAGCTAGACATTCAGTTCTCCAATCTTGACGAGTTACAGGTGAACTACAATAATGAACGTTCGAGAGATTTCACAAATCCTAGCCTGCCTTCTGAACCAAAAGGCCGGTCATCTCAACCTGGATATGGTGATGCGGGAGGCATGTATGCACTTCAAGCATCTGGAGCGAGACCAGCGGCCGTTGCTGCCGCATTCGGAGGAGGATTGCCACCTGGTGTTAGTGGGACGAACGACAGGTGTACAGTCCTTGTGTCCAATCTGAATCCGGATAGAATAGATGAAGACAAGCTCTTTAACCTTTTCTCCATTTACGGTAATATTGTGAGAATTAAGCTTCTCCGGAATAAACCTGATCATGCACTTGTTCAGATGGGAGATGGATTCCAGGCAGAATTAGCTGTGCACTTTTTGAAGGGAGCAATGTTGTTTGGCAAGAGATTGGAGGTCAACTTCTCAAAGCATCCTAACATTACGCAAGGGGCCGACACTCATGAATATGCTAACTCAAATCTTAATCGTTTTAACCGAAATGCTGCAAAGAACTACCGCTACTGCTGCTCCCCGACAAAGATGATCCACATATCATCTCTGTCCCAGGAAGTAACTGAAGAAGAAATCGTGAGTCTCCTCGAGGAGCATGGGCCAATTGTCAACACCAAGCTCTTTGAGATGAATGGGAAGAAGCAGGCACTCATCATGTTTGACACGGAGGAGCAGGCCACGGAAGCCCTTGTTTGCAAGCATGCTAGTTCGCTTAGTGGGTCGATCATTCGCATTTCGTTTTCCCAGTTGCAGACAATATGA 1290 45.19 MYIGGWAVVMPYANDLLQLFQPFGVITKLVMLRAKNQALMQMQDVPSAVNALQFFANVQPSIRGRNVYVQFSSHQELTTADQNAQGRGDEPNRILLVTIHHMLYPITVEVLHQVFFPHGFVEKIVTFQKSAGFQALIQYQTRQCAVSARTALQGRNIYDGCCQLDIQFSNLDELQVNYNNERSRDFTNPSLPSEPKGRSSQPGYGDAGGMYALQASGARPAAVAAAFGGGLPPGVSGTNDRCTVLVSNLNPDRIDEDKLFNLFSIYGNIVRIKLLRNKPDHALVQMGDGFQAELAVHFLKGAMLFGKRLEVNFSKHPNITQGADTHEYANSNLNRFNRNAAKNYRYCCSPTKMIHISSLSQEVTEEEIVSLLEEHGPIVNTKLFEMNGKKQALIMFDTEEQATEALVCKHASSLSGSIIRISFSQLQTI 429
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
8 5362998 5372328 + Lsi08G002430.1 Lsi08g00243 668169

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi08g00243 429 SUPERFAMILY RNA-binding domain, RBD 14 85 IPR035979 GO:0003676
Lsi08g00243 429 Gene3D - 92 195 IPR012677 -
Lsi08g00243 429 SUPERFAMILY RNA-binding domain, RBD 240 422 IPR035979 GO:0003676
Lsi08g00243 429 PANTHER MATRIN 3/NUCLEAR PROTEIN 220-RELATED 13 428 - -
Lsi08g00243 429 CDD RRM4_PTBPH3 345 423 - -
Lsi08g00243 429 PANTHER POLYPYRIMIDINE TRACT-BINDING PROTEIN HOMOLOG 3 13 428 - -
Lsi08g00243 429 MobiDBLite consensus disorder prediction 182 203 - -
Lsi08g00243 429 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 356 417 IPR000504 GO:0003723
Lsi08g00243 429 Gene3D - 12 91 IPR012677 -
Lsi08g00243 429 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 228 329 - -
Lsi08g00243 429 SMART rrm1_1 243 312 IPR000504 GO:0003723
Lsi08g00243 429 SMART rrm1_1 353 422 IPR000504 GO:0003723
Lsi08g00243 429 SMART rrm1_1 96 165 IPR000504 GO:0003723
Lsi08g00243 429 Pfam RRM-like domain 90 169 IPR021790 -
Lsi08g00243 429 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 242 316 IPR000504 GO:0003723
Lsi08g00243 429 SUPERFAMILY RNA-binding domain, RBD 91 192 IPR035979 GO:0003676
Lsi08g00243 429 Gene3D - 333 428 IPR012677 -
Lsi08g00243 429 MobiDBLite consensus disorder prediction 182 197 - -
Lsi08g00243 429 CDD RRM3_PTBPH3 241 316 IPR034797 -
Lsi08g00243 429 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 1 74 IPR000504 GO:0003723
Lsi08g00243 429 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 352 426 IPR000504 GO:0003723
Lsi08g00243 429 Gene3D - 239 332 IPR012677 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi08g00243 K14948 PTBP2, NPTB; polypyrimidine tract-binding protein 2 - csv:101210828 795.423
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi08g00243 Lsi-Chr8:5362998 Lsi09g00036 Lsi-Chr9:331694 4.62E-07 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
Vvi18g1355 . . Bda01g00863 . . . . . . . Cma01g00928 . . . . Cpe06g00967 . Bhi04g02176 . . . . . . Cla08g00080 Cam08g0077 Cec08g0174 Cco08g0134 Clacu08g0090 Cmu08g0089 Cre08g0078 . . . . . . . Cme03g00918 Blo17g00141 Blo18g00151 . Bda13g01425 Bpe02g01100 . Bma01g01436 Bma02g00160 . . . . . . . . . . . . . . . . . . . . . . . Lsi08g00243 . Chy03g00268 .
       

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
OG0004715 2 1 2 2 1 1 2 1 0 1 1 1 2 1 1 2 1 2 2 1 1 1 1 1 2 1 1 3 1 2 41
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi08g00243 Lsi_Chr08 FPKM 27.339554 26.912254 16.890285 18.244316 10.896636 10.269213 12.104956 3.362804 3.624736 2.869568