Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g02328 ATGGAAGGACCCGAATATTTCCAGCCCGGTTTTTGCTCTCAATTCGCCACCGAAAACCGCCAGTCCACCGATGCAAATAAAACCACCGTCGTCCAACCCTCCGCTGTTGCCGCCACTGCTGACCATTTCGTCGAGGACCTCTTAGATTTCTCTAATGACGACGACGTTGTCTTCACCGATGGAAATTTCGACAACCAAACCCCTACCTCCACCGATTCCTCCACTCTTACTTTACTCGATTCATGCAATTCCTACCCCAATTTCGAACAACACAACAATGCCCACAACTATAATTTCGCCGACGCCAATTTCTCCACCGACCTTGGTGTGCCGTACGATGACTTGGCGGAGCTGGAATGGCTTTCCAATTTCGTGGAAGACTCTTTCTCCACCGACGACTTGGAGAAGCTGAGTCTGATATCCGGGATGAATTCCCGGACTGACCATGACGATGACGCCTCAAAAACCCCAGAATTCCAGACCGGATTGAACCGGAACCACTCGTCATCCGGTTTCCGTCCCGAAATGTCGGTACCAGCTAAAGCCGCTCGTAGCAAGCGGTCTCGGGCGGCGCCCTGCATATGGAACTCCCGATTATCCGTACTCTCTCCCACAAATTCCTCTTCCGAAACCGACGTTGTCGTCACGCTCACGCCACATCCAAACACCGCCAAGAAAACCGCCAAGAAGAAAGAAATCCCGGACGACACGTCGTCCGCCGGCAATGGGGAAGGCCGTAAATGCCTCCATTGCGCCACCGACAAAACGCCGCAGTGGCGAACGGGCCCAATGGGCCCAAAGACTTTATGTAACGCTTGTGGGGTCCGGTACAAGTCCGGTCGTCTCGTACCGGAATACCGACCGGCGGCGAGCCCCACGTTTGTACTGACGAAACACTCGAATTCTCACCGGAAAGTTATGGAACTCCGACGGCAGAAGGAGATGATGAGAGCACAGCATCAACAACAGTATGTTCATCATGAGAGCATGGGGTTTGATCATGTATCCAACGACGACGATTATTTGATCCATCAACACATAGGGCCGCTCTACCAATAG 1059 52.79 MEGPEYFQPGFCSQFATENRQSTDANKTTVVQPSAVAATADHFVEDLLDFSNDDDVVFTDGNFDNQTPTSTDSSTLTLLDSCNSYPNFEQHNNAHNYNFADANFSTDLGVPYDDLAELEWLSNFVEDSFSTDDLEKLSLISGMNSRTDHDDDASKTPEFQTGLNRNHSSSGFRPEMSVPAKAARSKRSRAAPCIWNSRLSVLSPTNSSSETDVVVTLTPHPNTAKKTAKKKEIPDDTSSAGNGEGRKCLHCATDKTPQWRTGPMGPKTLCNACGVRYKSGRLVPEYRPAASPTFVLTKHSNSHRKVMELRRQKEMMRAQHQQQYVHHESMGFDHVSNDDDYLIHQHIGPLYQ 352
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 30490393 30492140 + Lsi04G023280.1 Lsi04g02328 662377

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g02328 352 Pfam GATA zinc finger 248 281 IPR000679 GO:0006355|GO:0043565
Lsi04g02328 352 PANTHER GATA TRANSCRIPTION FACTOR 1 351 - -
Lsi04g02328 352 MobiDBLite consensus disorder prediction 222 243 - -
Lsi04g02328 352 SMART GATA_3 242 292 IPR000679 GO:0006355|GO:0043565
Lsi04g02328 352 MobiDBLite consensus disorder prediction 145 175 - -
Lsi04g02328 352 PIRSF Txn_fac_GATA_plant 21 338 IPR016679 GO:0003677|GO:0005634|GO:0045893
Lsi04g02328 352 Gene3D - 243 327 IPR013088 GO:0006355|GO:0008270
Lsi04g02328 352 CDD ZnF_GATA 247 294 IPR000679 GO:0006355|GO:0043565
Lsi04g02328 352 PANTHER GATA TRANSCRIPTION FACTOR 1 351 - -
Lsi04g02328 352 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 243 306 - -
Lsi04g02328 352 MobiDBLite consensus disorder prediction 157 173 - -
Lsi04g02328 352 ProSitePatterns GATA-type zinc finger domain. 248 273 IPR000679 GO:0006355|GO:0043565
Lsi04g02328 352 ProSiteProfiles GATA-type zinc finger domain profile. 242 278 IPR000679 GO:0006355|GO:0043565
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g02328 - - - csv:101221905 612.068
       

WGDs- Genes

Select Gene_1 Gene_2 Event_name
Lsi04g02328 Lsi08g01074 CCT
Lsi04g02328 Lsi08g01074 ECH
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi04g00072 Lsi-Chr4:892197 Lsi04g02328 Lsi-Chr4:30490393 2.66E-39 dispersed
Lsi04g02328 Lsi-Chr4:30490393 Lsi07g00224 Lsi-Chr7:2415732 3.58E-49 dispersed
Lsi02g02999 Lsi-Chr2:36081820 Lsi04g02328 Lsi-Chr4:30490393 1.05E-90 transposed
Lsi07g00519 Lsi-Chr7:5457234 Lsi04g02328 Lsi-Chr4:30490393 7.22E-92 transposed
Lsi04g02328 Lsi-Chr4:30490393 Lsi08g01074 Lsi-Chr8:19327525 2.29E-119 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
Vvi4g279 Blo01g01777 . . Bda03g00433 . . Bma04g00410 . Cmo05g00609 Cmo12g00198 . . Car09g00560 Car12g00226 . Cpe07g00206 Cpe06g00489 . . . . . . . . . . . . . . . . . . Lsi04g02328 Csa03g04547 Chy04g00155 Cme03g01757 . . . . . . . . Sed02g0905 . Cmo09g00615 Cma09g00633 Cma12g00243 . . Cpe11g00511 . Bhi09g02574 Tan01g3930 Cmetu04g2325 . Hepe01g2218 Mch11g0766 . . . . . . . . Lsi08g01074 Csa02g02256 Chy03g01261 Cme04g00180
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Lsi08g01074 CCT,ECH 101 351 C2C2-Gata Transcription Factor Family AT5G25830 57.0 2.8e-69 259.2
Lsi04g02328 CCT,ECH 39 352 C2C2-Gata Transcription Factor Family AT5G25830 50.9 6.3e-69 258.1
Lsi05g01573 . 2 147 C2C2-Gata Transcription Factor Family AT3G06740 60.4 8.4e-37 150.2
Lsi07g00224 . 21 299 C2C2-Gata Transcription Factor Family AT5G66320 50.5 6.7e-66 248.1
Lsi01g00626 . 105 281 C2C2-Gata Transcription Factor Family AT4G36240 50.8 1.2e-42 170.2
Lsi07g01258 . 72 580 C2C2-Gata Transcription Factor Family AT4G17570 52.2 1.9e-128 456.4
       

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
OG0002406 3 2 1 1 0 1 2 2 2 2 2 2 3 2 2 3 2 2 3 2 2 2 2 2 2 2 2 4 2 1 60
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
25263 PF00320 GATA 3.20E-15 CL0167 Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g02328 Lsi_Chr04 FPKM 19.879747 23.275743 20.921022 22.101118 16.659567 12.615349 14.981355 21.781399 21.267466 22.294989