Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi08g00104 ATGTCAGGAAGATCAAATGGATGCACCATTTACGTTGGTAATTTGGATGAAAGGGTAAGTGACAGGGTTCTCTATGACATTCTAATCCAAGCTGGGCGGGTAGTGGACTTACACATTCCTCGGGACAAGGAATCTGCCAAACCTAAGGGTTTTGCTTTTGCAGAATATGAAAGTGAAGAGATTGCCAACTATGCTGTTAAGCTTTTCTCTGGTCTCGTGAATCTTCATAATCGTACCTTGAAGTTTGCAGTATCTGGGCAAGACAAGCCTTCACCAGGTAGCTATGCAATCACTTCATCATCAAATATATCCAATAAATCGCGGTCACAGATTGTTTCGAGTTACTCTAATGAAATATCTCAGCATTCCAATCGCTTTACTACATCATGTAAATTTACAACATATCCTGAGAACCATCTAGAAGAGCTACTTTACCCTGGTTTAGTTAACCAATATAATGGGTATGGATCACATTTGGATAACTACAATAAAGAATACAGTCAGAGTAGATTATCCTCCTTACGACCTTTTGAACTAATGCAGCCAGTGCCTTCCATTGTGGTTAATCTTAGGAATGACCTCTTAGATGGATGTAGAAGAACACTCATGTCAGGAAGATCAAATGGCTGCACCGTTTACGTAGGTAATTTGGATGAAAGGGTAAGTGATAGAGTTCTTTATGACATTTTAATCCAAGCTGGGCGGGTAGTGGACTTGCACATTCCTCGGGACAAGGAATCTGGCAAGTCCAAGGGTTTTGCTTTTGCAGTATATGAAAATGAGGAGATTACCAACTATGCTGTTAAGCTTTTCTCTGGTCTTGTGACTCTTCATAACCGTACCCTGAAGTTTGCAGTATCTGGGCAAGACAAGTCTTCACCTAGTAGTAGTGCAATCACTTCATCATCAAATGTATCTCATAAATTGAGGTCGCATATTGTTCCAGGTTACTCTAATGAAATATCTCAGTATCCCAATCAATTGTCAACATCGTGCAGGTTTTCAACGTACCCCGAAAACCATGTAGAAGCGCTTCCTTGCCCTGGTTTAGTTAACCAATATAATGGGTATGGATCACATTTGGATAACTACAATAAAGAATACAGTCAGAGATATTCTGGAACAACTTTGGATAGCTTTAACCAACCTAAATCACGCCGCCATGTTACGAGTTATCCAATATACTATCCTCCTTATGATCTTTTGAAATAA 1212 39.69 MSGRSNGCTIYVGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESAKPKGFAFAEYESEEIANYAVKLFSGLVNLHNRTLKFAVSGQDKPSPGSYAITSSSNISNKSRSQIVSSYSNEISQHSNRFTTSCKFTTYPENHLEELLYPGLVNQYNGYGSHLDNYNKEYSQSRLSSLRPFELMQPVPSIVVNLRNDLLDGCRRTLMSGRSNGCTVYVGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGKSKGFAFAVYENEEITNYAVKLFSGLVTLHNRTLKFAVSGQDKSSPSSSAITSSSNVSHKLRSHIVPGYSNEISQYPNQLSTSCRFSTYPENHVEALPCPGLVNQYNGYGSHLDNYNKEYSQRYSGTTLDSFNQPKSRRHVTSYPIYYPPYDLLK 403
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
8 2173537 2184317 + Lsi08G001040.1 Lsi08g00104 668030

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi08g00104 403 SUPERFAMILY RNA-binding domain, RBD 6 81 IPR035979 GO:0003676
Lsi08g00104 403 PANTHER OS01G0876500 PROTEIN 1 173 - -
Lsi08g00104 403 PANTHER OS01G0876500 PROTEIN 203 399 - -
Lsi08g00104 403 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 212 283 IPR000504 GO:0003723
Lsi08g00104 403 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 10 80 IPR000504 GO:0003723
Lsi08g00104 403 SMART rrm1_1 9 83 IPR000504 GO:0003723
Lsi08g00104 403 SMART rrm1_1 211 285 IPR000504 GO:0003723
Lsi08g00104 403 SUPERFAMILY RNA-binding domain, RBD 202 285 IPR035979 GO:0003676
Lsi08g00104 403 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 210 289 IPR000504 GO:0003723
Lsi08g00104 403 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 8 87 IPR000504 GO:0003723
Lsi08g00104 403 PANTHER RNA BINDING MOTIF RBM PROTEIN -RELATED 1 173 - -
Lsi08g00104 403 PANTHER RNA BINDING MOTIF RBM PROTEIN -RELATED 203 399 - -
Lsi08g00104 403 Gene3D - 204 297 IPR012677 -
Lsi08g00104 403 Gene3D - 2 91 IPR012677 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi08g00104 K12831 SF3B4, SAP49; splicing factor 3B subunit 4 - csv:101222164 305.834
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi08g00104 Lsi-Chr8:2173537 Lsi05g01351 Lsi-Chr5:21375433 6.60E-06 dispersed
Lsi08g00104 Lsi-Chr8:2173537 Lsi03g00505 Lsi-Chr3:5831144 1.71E-08 transposed
       

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
Vvi18g1709 Blo01g01680 Blo12g00814 . Bda03g00358 Bpe02g00261 . Bma04g00335 Bma01g02447 . . Cma01g00868 Cma09g01300 . . . Cpe06g00980 . . . . . . . . Cla08g00119 Cam08g0117 Cec08g0139 Cco08g0177 Clacu08g0128 Cmu08g0122 Cre08g0108 Cone4ag1156 . . . . . . Cme09g00085 . . . . . . . . . Cmo01g00911 . . . . Car09g01111 . Cpe02g00991 . . . . . . . . . . . . . . Lsi08g00104 . . .
       

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
OG0002883 1 6 2 2 1 2 1 1 2 2 2 1 2 2 1 2 2 2 2 2 2 1 1 1 1 1 1 3 3 1 53
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi08g00104 Lsi_Chr08 FPKM 0.289562 0.631615 0.381719 0.902562 0.22381 0.0 0.0 0.118119 0.072856 0.0