Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g01879 ATGGCGAAACCAAGCAGAGGCCGTCGCTCGCCGCCGTCGGGGTCGGGTTCCTCCTCACGTTCCCGCTCACTCTCCGGCTCTGATTCCCGCTCCAGTTCCCGCTCGCGCTCCAGGTCTGCATCTGTGTCCCGCTCCCGCTCTCGTTCCAGGTCCATTTCCTCGTCTTCGTCTCTCTCTCGCAGCGGTAGTTCTCGGAGCCGAAGCCCCCCTCCTCAGAGAAAGAGTCCGACTGAAACAGCTCGGCGGACTCGCGCTTCACCTCCACCAGCTAAACGAAGTTCTCCGCCAGCCAGGAAACCATCTCCTGTACGCGAGTCACTTGTTCTTCATATTGATGCACTGAGTAGGAATGTCCACGAGGGTCATTTAAGAGAAATCTTCAGTAATTTTGGTGAAGTAGTCAATGTCGAGCTGGCAATGGATCGCACAGTCAACCTTCCTAAAGGATATGGATATGTTGAATTCAAAACGAGATCTGATGCTGAAAAAGCCCAAGTGTATATGGATGGTGCCCAAATTGATGGGAATGTTATTCGAGCAAGATTTACATTGCCTCAAAGACAGAAGATGCCAACACCTCCAAGGACTGTAGCAACCGTTCCAAAGAGAGATGGTCCTAAGCCTGAAAATGTTGGTCCTGATGCTGAGAAGGATGACATGAAAAGAGCGAGAGAACCTTCTCCTCGTCGTAAACCTCCTTCACCTAGAAGACGCTCGCCTGTTGCTCGACGAGGTGGGTCTCCTAGAAGACAACCCGATTCTCCACGCCGTCGTCCGGAGTCTCCTCCACGCCGTCGCATAGAATCTCCTTTTCGTCGTGATTCTCCTCCTCCTAGAAGAAGGCCTGCATCGCCCATGAGAGGCGGTCGTTCCCCATCCCCTTTGGGAAGACGACATAGATCTCCTCCAAGGCCCTCTCCAAGAAGAATTCGTGGCAGTCCTGTTCGAAGGCGTTCACCACCACCTCCTAGGCGCCGTACACCACCTCGACGTGCTCGTAGTCCTCCCAGAAGGTCTCCAGTAGTTCGTAGACGAAGCCGTTCACCTATTAGAAGACCAGCTCGATCACGTTCCCGATCATTTTCACCACGGAGAGGTCGGCCGGCAGCTGCTGGTAGACGTGGGAGATCATCATCCTATTCTGGGTCACCTAGTCCACGCAAGGTGGCCAGGAGGGTATCTCGCAGTCCAAGAAGGCCTTTGAGAGGAAGAAGCAGCAGCAGGAGCAGTAGCAGTAGTTCTCCACCCCAAAACGCCATTTCGGACAGTAACGCACCAAATGGAAGAGGAGAAAACGGCGCAAACTTCTTGGTCAAATTGACTCTCAGGTCGCCATTCTTGATTCTTCTCCAATTCTCATCCTCTCTCTTGACGTTTTCTTGGCGCAAATCTCCCTGTATACCCTCTAAAATCCGCCATTTTCCCAACTTTTTTCAGCTTGATTTTGATCTTCGCTCAGTTGCTGTCAAGAACGCAAGGGCTTTGAATTTAATCCAAACCCGACCTTCGGATGTTGCTCTAATCGACGGGTTTTGTTCGGTTTTGCATTTTACAATTGTTAGATATCTGTGTGACAGGTGA 1581 51.87 MAKPSRGRRSPPSGSGSSSRSRSLSGSDSRSSSRSRSRSASVSRSRSRSRSISSSSSLSRSGSSRSRSPPPQRKSPTETARRTRASPPPAKRSSPPARKPSPVRESLVLHIDALSRNVHEGHLREIFSNFGEVVNVELAMDRTVNLPKGYGYVEFKTRSDAEKAQVYMDGAQIDGNVIRARFTLPQRQKMPTPPRTVATVPKRDGPKPENVGPDAEKDDMKRAREPSPRRKPPSPRRRSPVARRGGSPRRQPDSPRRRPESPPRRRIESPFRRDSPPPRRRPASPMRGGRSPSPLGRRHRSPPRPSPRRIRGSPVRRRSPPPPRRRTPPRRARSPPRRSPVVRRRSRSPIRRPARSRSRSFSPRRGRPAAAGRRGRSSSYSGSPSPRKVARRVSRSPRRPLRGRSSSRSSSSSSPPQNAISDSNAPNGRGENGANFLVKLTLRSPFLILLQFSSSLLTFSWRKSPCIPSKIRHFPNFFQLDFDLRSVAVKNARALNLIQTRPSDVALIDGFCSVLHFTIVRYLCDR 526
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 25924179 25934544 + Lsi04G018790.1 Lsi04g01879 661928

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g01879 526 MobiDBLite consensus disorder prediction 1 104 - -
Lsi04g01879 526 PANTHER BNAA09G56240D PROTEIN 20 398 - -
Lsi04g01879 526 SMART rrm1_1 108 181 IPR000504 GO:0003723
Lsi04g01879 526 MobiDBLite consensus disorder prediction 249 280 - -
Lsi04g01879 526 PANTHER RIBONUCLEIC ACID BINDING PROTEIN S1 20 398 - -
Lsi04g01879 526 ProSiteProfiles Eukaryotic RNA Recognition Motif (RRM) profile. 107 185 IPR000504 GO:0003723
Lsi04g01879 526 CDD RRM_RNPS1 109 181 IPR034201 -
Lsi04g01879 526 MobiDBLite consensus disorder prediction 403 430 - -
Lsi04g01879 526 Gene3D - 9 191 IPR012677 -
Lsi04g01879 526 MobiDBLite consensus disorder prediction 183 430 - -
Lsi04g01879 526 MobiDBLite consensus disorder prediction 10 76 - -
Lsi04g01879 526 Pfam RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) 111 179 IPR000504 GO:0003723
Lsi04g01879 526 SUPERFAMILY RNA-binding domain, RBD 88 199 IPR035979 GO:0003676
Lsi04g01879 526 MobiDBLite consensus disorder prediction 207 232 - -
Lsi04g01879 526 MobiDBLite consensus disorder prediction 301 362 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g01879 K14325 RNPS1; RNA-binding protein with serine-rich domain 1 - csv:101216970 271.552
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi04g01879 Lsi-Chr4:25924179 Lsi04g01255 Lsi-Chr4:19552123 3.63E-12 dispersed
Lsi04g01879 Lsi-Chr4:25924179 Lsi08g00902 Lsi-Chr8:17380734 2.49E-09 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
Vvi19g998 . . . . . . . . . . Cma01g01306 Cma09g00736 Car01g01114 Car09g00646 . . Cpe02g00625 . . . . . . . Cla11g01601 Cam11g1667 Cec11g1696 . . Cmu11g1637 . . . . . Lsi04g01879 . . Cme07g00708 . . . . . . . . . Cmo01g01363 Cmo09g00728 . . . . . . . . . . . . . . . . . . . . . . . .
       

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
OG0008093 2 1 1 1 1 0 2 0 0 1 1 0 2 1 1 2 0 2 2 0 1 1 1 1 1 1 1 1 2 1 31
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g01879 Lsi_Chr04 FPKM 18.249556 20.085529 18.878176 18.761616 19.367685 22.007727 20.741255 19.623323 19.281361 19.416044