Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g01583 ATGACTATTGCAGCTCTCAAGGTCATTCGTAATAAGCAAACTGGTTTGTCTGAGGGGTATGGATTTGTAGAATTTTTTTCTCATGCAACAGCTGAGAAAGCTCTTCAGAACTATTCTGGAGTGTTCATGCCAAGTACAGAGCAGACTTTCCGCCTGAATTGGGCAACATTTAGCACCGGTGACAAGCGATCAGATAATGATCCTGATCTTTCTATTTTCGTTGGAGACTTAGCTGCAGATGTTACTGATTCTTTGTTGTACGAAACATTTTCTAGTAAATTTCCTTCGGTTAAAGCAGCAAAAGTTGTAATTGATGCCAACACTGGTCGTTCAAAGGGTTATGGTTTTGTGCGGTTTGGAGATGACAATGAAAGGTCTCAGGCCATGACTGAAATGAATGGTGTATATTGTTCAAGCAGACCTATGCGCATTGGTGCAGCAACGCCCAGAAAGTCTTCTGGATTTCAGCAACTGCATTCTTCACAAGGAGGATATTCAACAAATGGTTCCTTTAGCCATGGTCTCCAATCTGAAGGAGATTCTGCAAATACAACTATATTTGTTGGAGGGCTTGATCCTAATGTCACCGATGAAGATCTGAGACAACCTTTCTTGCAGTATGGTGAGATAGTCTCTGTTAAAATACCAGTTGGTAAAGGATGTGGGTTTGTCCAGTTTGCCAACAGAAATGATGCTGAAGAGGCTTTGCAGAAACTAAATGCAACTGTAATTGGCAAGCAAACTGTTCGTCTTTCTTGGGGCCGAAATCCAGCAAATAAGCAGGCAAATTACCCTTCTCTCCTACTAGATTTTGGGAATCAGTGGAATGGAGCTTACTACGGGGGTCACATATATGATGGCTATGGATATGGTCTGCAACCTCATCACGATCCAAGTATGTATCACGCAGCTTATGGAGCTTATACAGTCTATGGAAGCCATCAACAACAAATTTGCTTGATTATTGGTGCAATTGGGATTGAGCAATTCATTTCTTAG 999 41.54 MTIAALKVIRNKQTGLSEGYGFVEFFSHATAEKALQNYSGVFMPSTEQTFRLNWATFSTGDKRSDNDPDLSIFVGDLAADVTDSLLYETFSSKFPSVKAAKVVIDANTGRSKGYGFVRFGDDNERSQAMTEMNGVYCSSRPMRIGAATPRKSSGFQQLHSSQGGYSTNGSFSHGLQSEGDSANTTIFVGGLDPNVTDEDLRQPFLQYGEIVSVKIPVGKGCGFVQFANRNDAEEALQKLNATVIGKQTVRLSWGRNPANKQANYPSLLLDFGNQWNGAYYGGHIYDGYGYGLQPHHDPSMYHAAYGAYTVYGSHQQQICLIIGAIGIEQFIS 332
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 23380579 23385007 + Lsi04G015830.1 Lsi04g01583 661632

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g01583 332 SMART rrm1_1 185 252 IPR000504 GO:0003723
Lsi04g01583 332 SMART rrm1_1 71 145 IPR000504 GO:0003723
Lsi04g01583 332 SUPERFAMILY RNA-binding domain, RBD 3 58 IPR035979 GO:0003676
Lsi04g01583 332 PANTHER POLYADENYLATE-BINDING PROTEIN RBP47C-RELATED 3 317 - -
Lsi04g01583 332 Gene3D - 1 56 IPR012677 -
Lsi04g01583 332 CDD RRM2_SECp43_like 69 148 - -
Lsi04g01583 332 CDD RRM3_NGR1_NAM8_like 183 254 - -
Lsi04g01583 332 SUPERFAMILY RNA-binding domain, RBD 52 171 IPR035979 GO:0003676
Lsi04g01583 332 Gene3D - 57 166 IPR012677 -
Lsi04g01583 332 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 184 256 IPR000504 GO:0003723
Lsi04g01583 332 CDD RRM1_SECp43_like 2 58 - -
Lsi04g01583 332 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 186 249 IPR000504 GO:0003723
Lsi04g01583 332 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 72 141 IPR000504 GO:0003723
Lsi04g01583 332 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 5 46 IPR000504 GO:0003723
Lsi04g01583 332 PANTHER TRNA SELENOCYSTEINE 1-ASSOCIATED PROTEIN 1-RELATED-RELATED 3 317 - -
Lsi04g01583 332 Gene3D - 169 264 IPR012677 -
Lsi04g01583 332 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 1 57 IPR000504 GO:0003723
Lsi04g01583 332 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 70 149 IPR000504 GO:0003723
Lsi04g01583 332 SUPERFAMILY RNA-binding domain, RBD 175 267 IPR035979 GO:0003676
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g01583 - - - csv:101211504 575.089
       

WGDs- Genes

Select Gene_1 Gene_2 Event_name
Lsi04g01583 Lsi08g01446 CCT
Lsi04g01583 Lsi08g01446 ECH
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi03g01363 Lsi-Chr3:24557870 Lsi04g01583 Lsi-Chr4:23380579 1.62E-06 dispersed
Lsi04g01583 Lsi-Chr4:23380579 Lsi10g00304 Lsi-Chr10:4890733 5.99E-137 dispersed
Lsi11g00695 Lsi-Chr11:7325362 Lsi04g01583 Lsi-Chr4:23380579 1.32E-12 dispersed
Lsi11g00880 Lsi-Chr11:11510248 Lsi04g01583 Lsi-Chr4:23380579 3.69E-15 dispersed
Lsi04g01583 Lsi-Chr4:23380579 Lsi08g01446 Lsi-Chr8:22647082 1.25E-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
Vvi18g813 Blo01g01536 . Bda01g00562 . . . Bma04g00177 Bma01g02286 . Cmo12g00459 Cma01g01860 Cma09g00213 Car01g01448 . Sed01g0343 Cpe06g00147 Cpe07g00462 Bhi04g00313 Tan02g1894 Cmetu05g1832 . Hepe10g0703 . Lcy13g2033 . . . . . . . Cone4ag1559 Cone7ag1392 . . Lsi04g01583 Csa04g02386 . Cme03g02008 . . . . . . . . Sed01g2645 Cmo01g01919 Cmo09g00205 Cma12g00518 . . Car09g00180 . Cpe02g00165 Bhi09g03353 Tan01g4821 Cmetu11g2597 . Hepe01g1741 Mch11g0266 . Cla05g02019 Cam05g2169 Cec05g2185 Cco05g2233 Clacu05g2162 Cmu05g2030 Cre05g2158 Lsi08g01446 Csa02g01994 Chy07g00112 Cme04g00689
       

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
Lsi04g01583 Lsi_Chr04 FPKM 0.0 0.0 4.039487 4.400887 2.861268 1.687608 2.619345 0.0 0.0 0.0