Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi10g00416 ATGGAGTTTTTGGAGGCTAAAGCTTTGAAATCGAGTTTCCATTGGGAATTAGCGATGAAATCTGCTCAACAAGATGCTTTGGTCGAGGAAGTTTGGTGTTTGAACGGAGCTAATCTTGTTGCCGGCGAGGATTTTGAAGTCGACGAGTTTTTGAACTTCTCTAATGGCGATTTAGAACATGGGTCTGCTTTGAGAGTTCAAGAAGATGATGATTATGAAGAGTTTGAGAAAAATCGGTTCTCTGTTTCTTCGAATTCCAACCAGTCCGGTGGGTCTCCGGTCGTCGGAGAGGAGGAGTCCAAGTCGCTTCTTGCCGTTGAACTTGCTAGTCCGGACGATTCTTTGGCGGACCTTGAATGGGTTTCTCAATTCGTCGACGATTCTTGCTCGGAATTTTCCTATGCCGCCGTGGCTTTCAACCGCTCCGAACCGGAAAAGAAACTCGCCGGAACTGTAATTTCGTGTTTGCCGACGTTTTTCCCTGTCAGACCGAGGACGAAAAGGTCAAGGCAATCTCGTCAAGCGAAATCCGCCGGTTCTTCTCTCAACCAATCGCCGTCGTCTTCGTCCTCGTCGACCTCCTCCGGCGTTTCCTCCGCCGCACCTTGGTTCATCTTCTCCGACGCCGGTGAGAACGTGGACTCTTTGAACGTCTCCGGCGAACCTCCGAAGAAGCAGAGGAAAAAATCATCGTCATCGTCGCCGTCGCCGGCGGCTCTTCTACCCACCGGTCAGATTCCGCGGCGGTGCAGCCATTGTCTGGTTCAGAAAACCCCACAGTGGCGGACCGGTCCAAACGGAGCCAAAACGCTCTGCAACGCTTGTGGCGTCCGGTATAAATCCGGTCGGCTCTTCCCGGAATATAGACCGGCGTTGAGTCCCACTTTTTGCAGCGGCGTTCACTCGAACAGTCATAGGAAAGTACTTGAAATGAGGAAGACGAAGGAAGTTCCAGAACCGGCGACCGAGTTGGCCCCAATGGTTCCGAGTTACTAA 996 51.81 MEFLEAKALKSSFHWELAMKSAQQDALVEEVWCLNGANLVAGEDFEVDEFLNFSNGDLEHGSALRVQEDDDYEEFEKNRFSVSSNSNQSGGSPVVGEEESKSLLAVELASPDDSLADLEWVSQFVDDSCSEFSYAAVAFNRSEPEKKLAGTVISCLPTFFPVRPRTKRSRQSRQAKSAGSSLNQSPSSSSSSTSSGVSSAAPWFIFSDAGENVDSLNVSGEPPKKQRKKSSSSSPSPAALLPTGQIPRRCSHCLVQKTPQWRTGPNGAKTLCNACGVRYKSGRLFPEYRPALSPTFCSGVHSNSHRKVLEMRKTKEVPEPATELAPMVPSY 331
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
10 6313348 6314724 + Lsi10G004160.1 Lsi10g00416 671973

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi10g00416 331 MobiDBLite consensus disorder prediction 164 197 - -
Lsi10g00416 331 PANTHER GATA TRANSCRIPTION FACTOR 4 331 - -
Lsi10g00416 331 MobiDBLite consensus disorder prediction 173 197 - -
Lsi10g00416 331 PANTHER GATA TRANSCRIPTION FACTOR 4 331 - -
Lsi10g00416 331 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 245 307 - -
Lsi10g00416 331 CDD ZnF_GATA 249 306 IPR000679 GO:0006355|GO:0043565
Lsi10g00416 331 PIRSF Txn_fac_GATA_plant 7 327 IPR016679 GO:0003677|GO:0005634|GO:0045893
Lsi10g00416 331 Gene3D - 243 317 IPR013088 GO:0006355|GO:0008270
Lsi10g00416 331 MobiDBLite consensus disorder prediction 215 243 - -
Lsi10g00416 331 SMART GATA_3 244 294 IPR000679 GO:0006355|GO:0043565
Lsi10g00416 331 ProSiteProfiles GATA-type zinc finger domain profile. 248 280 IPR000679 GO:0006355|GO:0043565
Lsi10g00416 331 ProSitePatterns GATA-type zinc finger domain. 250 275 IPR000679 GO:0006355|GO:0043565
Lsi10g00416 331 Pfam GATA zinc finger 250 283 IPR000679 GO:0006355|GO:0043565
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi10g00416 - - - csv:101205298 554.673
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi09g01169 Lsi-Chr9:18922604 Lsi10g00416 Lsi-Chr10:6313348 2.47E-33 dispersed
Lsi10g00416 Lsi-Chr10:6313348 Lsi07g00519 Lsi-Chr7:5457234 5.00E-40 dispersed
Lsi01g00626 Lsi-Chr1:5038133 Lsi10g00416 Lsi-Chr10:6313348 1.85E-43 wgd
Lsi10g00416 Lsi-Chr10:6313348 Lsi07g00224 Lsi-Chr7:2415732 9.27E-61 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
Vvi3g28 Blo02g00646 . Bda06g00964 Bda08g00959 Bpe07g00497 . Bma05g00426 . . . Cma02g00364 Cma20g00811 Car02g00231 Car20g00695 . . . . . . . . . . . . . . . . . Cone12ag1182 Cone8ag1227 . . Lsi10g00416 . . . . . . . . Bpe05g00319 . . . Cmo02g00367 Cmo20g00819 . . . . Cpe16g00276 Cpe05g01292 Bhi10g01940 Tan05g1237 . . Hepe08g0974 . . . . . . . . . . Csa02g01309 . Cme11g00170
       

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
OG0003888 3 2 1 1 2 1 2 1 1 1 1 1 2 1 1 2 1 2 2 1 1 1 1 1 1 1 1 4 3 0 43
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
26018 PF00320 GATA 1.40E-15 CL0167 Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi10g00416 Lsi_Chr10 FPKM 13.051829 15.249401 12.100452 12.914285 8.394753 8.269553 9.708028 3.1998 2.941296 3.743835