Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi10g00304 ATGGCCCAACCTTCCAACGGTGCTGATCTCAATCCCCAGGCCCCTCACCCTCACCACCAATGGTTTCAACAACAACAACAGTATCAGCAGCAATGGATGGCGATGCAGTACCCTGCCGCCGCCATGGCCATGATGCATCAACAGCAGATGATGATGTACCCTCCTCAGCATTATATGACGTATTCTCACCATCCTTATCAACAGCAACAACAGCAACAGCAGCAACCGTCGCAGCAGCAGCAGCAGCAGCAAGCTCAGTCGCAACGACCTCGCAGACAGGGGTCAACGGACGAGGTTAAGACGCTTTGGATTGGTGACCTTCAGCCCTGGATGGACGAGACCTACCTCAATAATTGTTTCGCTCACACCGGCGAGGTTTTCTCTGTTAAGGTTATATGCAATAAGCAAACTGGTCAATCTGAGGGCTACGGATTTGTTGAGTTCTATTCGCATGCAACAGCTGATAAAGTATTGCAGAATTATAATGGTGCTATAATGCCTAATACAGAGCTACCTTTCCGTCTCAATTGGGCAACCTTTAGTGCAAATGATAGGCGACCGGACACTGGTTCTGACCTATCGATATTTGTTGGTGATTTGGCTGCCGATGTGACTGATGCTATGCTGCAAGAAACCTTTTCTAGTAGATACACATCTGTTAAAGGAGCAAAGGTGGTTATTGATTCAAATTCAGGTCGTTCAAAAGGTTATGGCTTTGTTAGGTTTGGTGATGAAAATGAAAGGACAAGGGCTATGACTGAAATGAATGGGATATATTGTTCAAGTAGACCCATGCGCATTGGTGTTGCAACACCAAAGAAAGCATCTGGATATCAACAAGGTTATTCTTCACAAGCTTTGGTACTGGCTGGTGGTGGTGGACATGCAAATGGCATGGCTGTTCAGGGTTCACAATCAGATGGCGAGTCAAACAACACGACTATATTTGTTGGCGGCCTTGATTCTGATGTTAGTGATGAAGATCTCAAGCAACCTTTCTCTAAATTTGGTGATGTTGTCTCTGTGAAAATCCCTATTGGAAAAGGATGTGGATTTGTGCAATTTGCTAACAGAAAGAATGCTGAGGATGCAATACAGGGACTGAATGGAACAGTTATAGGGAAGCAAACTGTTCGTCTTTCTTGGGGCCGAAGTACAGGGAACAAGCAGTGGAGAGGTGATTCTAACAACCAATGGAATGGGGGACGTTATGGTGGGCAAGGCTATGGTGGTGGCTACTACTCTGTACCACAGCATCAGGACGCAAACATGCATGCCACAACTGCTGCAGTTAATGGCTCATCTTGA 1308 46.1 MAQPSNGADLNPQAPHPHHQWFQQQQQYQQQWMAMQYPAAAMAMMHQQQMMMYPPQHYMTYSHHPYQQQQQQQQQPSQQQQQQQAQSQRPRRQGSTDEVKTLWIGDLQPWMDETYLNNCFAHTGEVFSVKVICNKQTGQSEGYGFVEFYSHATADKVLQNYNGAIMPNTELPFRLNWATFSANDRRPDTGSDLSIFVGDLAADVTDAMLQETFSSRYTSVKGAKVVIDSNSGRSKGYGFVRFGDENERTRAMTEMNGIYCSSRPMRIGVATPKKASGYQQGYSSQALVLAGGGGHANGMAVQGSQSDGESNNTTIFVGGLDSDVSDEDLKQPFSKFGDVVSVKIPIGKGCGFVQFANRKNAEDAIQGLNGTVIGKQTVRLSWGRSTGNKQWRGDSNNQWNGGRYGGQGYGGGYYSVPQHQDANMHATTAAVNGSS 435
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
10 4890733 4900434 + Lsi10G003040.1 Lsi10g00304 671861

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi10g00304 435 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 100 180 IPR000504 GO:0003723
Lsi10g00304 435 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 313 385 IPR000504 GO:0003723
Lsi10g00304 435 MobiDBLite consensus disorder prediction 1 25 - -
Lsi10g00304 435 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 195 265 IPR000504 GO:0003723
Lsi10g00304 435 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 315 378 IPR000504 GO:0003723
Lsi10g00304 435 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 102 171 IPR000504 GO:0003723
Lsi10g00304 435 MobiDBLite consensus disorder prediction 64 92 - -
Lsi10g00304 435 Gene3D - 192 269 IPR012677 -
Lsi10g00304 435 PANTHER POLYADENYLATE-BINDING PROTEIN RBP47B 19 432 - -
Lsi10g00304 435 SUPERFAMILY RNA-binding domain, RBD 175 297 IPR035979 GO:0003676
Lsi10g00304 435 Gene3D - 58 191 IPR012677 -
Lsi10g00304 435 MobiDBLite consensus disorder prediction 64 98 - -
Lsi10g00304 435 CDD RRM2_SECp43_like 192 271 - -
Lsi10g00304 435 CDD RRM1_SECp43_like 101 181 - -
Lsi10g00304 435 SUPERFAMILY RNA-binding domain, RBD 305 413 IPR035979 GO:0003676
Lsi10g00304 435 PANTHER TRNA SELENOCYSTEINE 1-ASSOCIATED PROTEIN 1-RELATED-RELATED 19 432 - -
Lsi10g00304 435 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 193 272 IPR000504 GO:0003723
Lsi10g00304 435 Gene3D - 294 418 IPR012677 -
Lsi10g00304 435 CDD RRM3_NGR1_NAM8_like 312 383 - -
Lsi10g00304 435 SUPERFAMILY RNA-binding domain, RBD 65 183 IPR035979 GO:0003676
Lsi10g00304 435 SMART rrm1_1 314 381 IPR000504 GO:0003723
Lsi10g00304 435 SMART rrm1_1 101 174 IPR000504 GO:0003723
Lsi10g00304 435 SMART rrm1_1 194 268 IPR000504 GO:0003723
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi10g00304 - - - csv:101215609 680.248
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi04g01582 Lsi-Chr4:23379924 Lsi10g00304 Lsi-Chr10:4890733 7.09E-09 dispersed
Lsi04g01583 Lsi-Chr4:23380579 Lsi10g00304 Lsi-Chr10:4890733 5.99E-137 dispersed
Lsi10g00304 Lsi-Chr10:4890733 Lsi11g00147 Lsi-Chr11:1639159 1.20E-13 dispersed
Lsi05g02150 Lsi-Chr5:28246946 Lsi10g00304 Lsi-Chr10:4890733 5.00E-07 transposed
Lsi06g00103 Lsi-Chr6:1019089 Lsi10g00304 Lsi-Chr10:4890733 7.40E-06 transposed
Lsi07g00849 Lsi-Chr7:9536296 Lsi10g00304 Lsi-Chr10:4890733 4.29E-06 transposed
Lsi09g00425 Lsi-Chr9:4503185 Lsi10g00304 Lsi-Chr10:4890733 4.28E-133 transposed
Lsi09g01845 Lsi-Chr9:27298110 Lsi10g00304 Lsi-Chr10:4890733 1.27E-08 transposed
Lsi10g00304 Lsi-Chr10:4890733 Lsi08g01446 Lsi-Chr8:22647082 7.92E-176 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
Vvi3g447 Blo02g00819 . Bda06g01045 . . . . Bma12g00469 . . Cma02g00443 Cma20g00892 Car02g00300 Car20g00769 . . . . . . . . . . . . . . . . . Cone6ag0064 Cone9ag0078 Cone14ag1139 Cone15ag1157 Lsi10g00304 . Chy11g00443 . . . . . . . . . . Cmo02g00452 Cmo20g00899 . . . . . Cpe05g01219 . . . . . . . Cla09g01707 Cam09g1803 Cec09g1863 Cco09g1956 . . Cre01g0704 . Csa02g01195 . Cme11g00517
       

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
OG0000461 5 3 1 4 1 5 5 5 5 4 4 4 5 3 3 4 5 5 5 5 3 3 3 3 3 4 3 6 6 2 117
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi10g00304 Lsi_Chr10 FPKM 6.532649 7.394882 3.204385 3.291101 2.189948 1.666724 2.052328 1.512623 1.727965 1.90758