Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g00259 ATGTCGTACTCTCCTAATCAGAGATTTGTTAGCAGCAGTAGAAAGTCGAATCTGCTGCCAAATAATTTCTCTGCAGATCGCAAAATGAGGAGAAAACTTCGTATAATCTGTTACGATCCTGATGCAACTGATTCATCTTCAAGCGAAGATGAAGGAGAAATAAATGCAAGAAAGTTAAACCGAATCGTACACGAAATCCACCTGCCTCCGCTGAAAAAGTCTCTCGAATCCGAGAGTTCTCAAAACAGCAACAATGAATACAAAAGCCCCAAGTTTAAACAGTCGAAGGCTCTGTTCAAAAACCCTTCCTCTCGAAGACAATCGTCTTCCAAATACAGAGGTGTCAGACAGAGATCTTGGGGTAAATGGGCGGCTGAGATTCGAGATCCTTTTAAAAGAAGCCGTGTTTGGCTTGGTACTTACGATACTGCAGAAGAAGCTTCTCAAGCTTACGAGTCGAGGAGGTTACAGTTCGAAGCTATGGCGGCGGAAATGGCTGTTGAAGAAGAAAGCAAGAGAGCTGGATCCTCATCTTCCCCTGTTGTTTCGGAAAGTACGGCGGAAACCACCGTGTCTCATACATCGCCGTCGTCGGTTCTTGAATGGGACGATTCAACTTTGCAAAGCCATGATTTGAAAGAGGGATCAGATTCAATCAAAGAAGAAACAGACTGCAATATGAACTATCTTCAAAAAGGCGATCAGGGTAGTAATCCGTTTATGGAGGAAATTAACATGGGTATTGATTTTGATTCGATTCTGGCAGATGGAATCGGGATGTTCTTGGAGGATTTTGGAAGTTTAGAGAATACTGAGATTTTTGGGCTTGCTGATGATGAACCCAGTGGCCTTCCGAATTGGGATTTTGAGGATTTTGGGAATGATGATATTTCCTGTTGGCTTGATGATTCCATCAACATTACATGCCCTTGA 933 42.87 MSYSPNQRFVSSSRKSNLLPNNFSADRKMRRKLRIICYDPDATDSSSSEDEGEINARKLNRIVHEIHLPPLKKSLESESSQNSNNEYKSPKFKQSKALFKNPSSRRQSSSKYRGVRQRSWGKWAAEIRDPFKRSRVWLGTYDTAEEASQAYESRRLQFEAMAAEMAVEEESKRAGSSSSPVVSESTAETTVSHTSPSSVLEWDDSTLQSHDLKEGSDSIKEETDCNMNYLQKGDQGSNPFMEEINMGIDFDSILADGIGMFLEDFGSLENTEIFGLADDEPSGLPNWDFEDFGNDDISCWLDDSINITCP 310
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 2640849 2641781 - Lsi04G002590.1 Lsi04g00259 660308

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g00259 310 MobiDBLite consensus disorder prediction 172 205 - -
Lsi04g00259 310 Pfam AP2 domain 110 160 IPR001471 GO:0003700|GO:0006355
Lsi04g00259 310 MobiDBLite consensus disorder prediction 1 25 - -
Lsi04g00259 310 SMART rav1_2 111 174 IPR001471 GO:0003700|GO:0006355
Lsi04g00259 310 CDD AP2 110 151 IPR001471 GO:0003700|GO:0006355
Lsi04g00259 310 Gene3D AP2/ERF domain 110 166 IPR036955 GO:0003700|GO:0006355
Lsi04g00259 310 ProSiteProfiles AP2/ERF domain profile. 111 168 IPR001471 GO:0003700|GO:0006355
Lsi04g00259 310 MobiDBLite consensus disorder prediction 169 218 - -
Lsi04g00259 310 MobiDBLite consensus disorder prediction 72 113 - -
Lsi04g00259 310 MobiDBLite consensus disorder prediction 1 23 - -
Lsi04g00259 310 PANTHER SHN SHINE , DNA BINDING / TRANSCRIPTION FACTOR 20 310 - -
Lsi04g00259 310 PIRSF PTI6 5 303 IPR017392 GO:0003700
Lsi04g00259 310 PRINTS Ethylene responsive element binding protein signature 112 123 IPR001471 GO:0003700|GO:0006355
Lsi04g00259 310 PRINTS Ethylene responsive element binding protein signature 134 150 IPR001471 GO:0003700|GO:0006355
Lsi04g00259 310 SUPERFAMILY DNA-binding domain 110 158 IPR016177 GO:0003677
Lsi04g00259 310 MobiDBLite consensus disorder prediction 74 113 - -
Lsi04g00259 310 PANTHER ETHYLENE-RESPONSIVE TRANSCRIPTION FACTOR ERF119 20 310 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g00259 - - - csv:101221197 504.597
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi04g00259 Lsi-Chr4:2640849 Lsi07g00697 Lsi-Chr7:7508907 4.37E-27 dispersed
Lsi05g01817 Lsi-Chr5:25422927 Lsi04g00259 Lsi-Chr4:2640849 1.07E-42 transposed
Lsi08g00406 Lsi-Chr8:11347554 Lsi04g00259 Lsi-Chr4:2640849 1.20E-86 transposed
Lsi02g00178 Lsi-Chr2:1518947 Lsi04g00259 Lsi-Chr4:2640849 1.28E-33 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
Vvi1g303 . Blo16g01062 Bda01g02077 Bda11g01147 Bpe13g01346 Bpe10g00938 . Bma15g00086 Cmo04g01583 Cmo18g01035 . Cma18g01025 Car04g01564 Car18g00945 Sed11g1612 . . Bhi07g01328 Tan04g0862 Cmetu03g2262 Lac13g0490 Hepe01g1195 . . Cla05g02303 Cam05g2476 Cec05g2499 Cco05g2541 Clacu05g2471 Cmu05g2333 Cre05g2450 . . Cone13ag0288 . Lsi04g00259 Csa05g02608 Chy10g01143 Cme10g00264 . . . Bda11g01147 . Bpe02g02269 Bma01g00167 Bma06g00759 . . Cmo15g00939 . . . Car15g00843 . . . . . . . . . . . . . . . . . . . .
       

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
OG0001455 2 2 1 3 3 2 4 2 2 2 2 2 4 2 2 4 2 3 3 2 2 2 2 2 2 2 2 3 5 1 72
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
25116 PF00847 AP2 1.60E-12 CL0081 Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g00259 Lsi_Chr04 FPKM 7.566952 7.581631 27.838459 31.889244 421.360596 314.953308 423.413971 17.827215 17.645124 19.497746