Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi06g01109 ATGGGAATTGCCGGTGATAGTGTTGTTAAGGGTTTTGGCGGCGGATGGGCCGTCGTCGCTAAACCTTGCGATTCCTGCAAGACTGGCCCTGCTGCTGTCTATTGTCGACCGGACTCTGCTTTCCTCTGCCTTCCCTGCGACGCCAAAATTCACTGTGCCAACAAGCTCGCCTCTCGCCATGAGCGCGTCTGGATGTGTGAGGTTTGTGAACAAGCTCCTGCTGTGGTCACGTGCAAGGCCGACGCTGCGGCTCTTTGTGTTACCTGTGATTCCGATATTCACTCTGCTAACCCACTGGCCCGTCGCCACGAGCGTGTCCCGGTCGAGCCTTTCTTCGACACTGCTGAATCAGTCGTTAAATCCTCTTCTGTTTTGAATTTTTTGGTTCCTAATGAAACCAACGCCAGTGCTTGCGACGGTGTCCATCACCACGAGGAGGTGGAGGTCGCCTCCTGGCTTTTATCAAACCCGTCATTCAACTCTAAGCTCGTTGACGGCTTTGAACTCAAACCGCCTGGCGCTGATCATTTGTTCTTCAATGAAATGGATTCTTTTATTGATTTTGAATATCCAAATCCAGTCAATAACCACAGCGCTATTAACGACAGCGTCGTCCCTGTTCAGACGAAGCCACTCTCTACGCCGGTGATTAACCATACCCACTCCCCTGAAAATTGCTACGACATTGACTTTTGCAGATCCAAACTCAATTCATTCGGCTATCAACCTCAATCCCTGAGCCACAGTGTTTCTTCTTCTTCTCTAGAAGTCGGAGTTGTTCCAGAAGGGAATTCGATGTCGGACATATCGTACCCGTTGGGTCAAAACGTGAGTAACGGGGCAGATTTGGGGCTACCGTTGTCAGGAACCGGCAACCAAGCGACCCAATTGTGTGGAATGGATCGGGAAGCGAGAGTGTTGAGGTACAGAGAGAAGAGGAAGAACCGAAAATTCGAGAAGACAATCCGATATGCTTCAAGAAAAGCTTATGCGGAAACCCGTCCCAGAATCAAAGGCCGGTTCGCTAAACGGACTGATACGTTATCAGAGGTTGATGAAATCTATGGCTCGGCTGCTTCGTCTGTGTTCCTAACGGATGTCCAATACGGCGTCGTACCAACGAGCATGGGTGTCCGCGTGGACGCCACGTACCTCTCAACGTAG 1164 50.77 MGIAGDSVVKGFGGGWAVVAKPCDSCKTGPAAVYCRPDSAFLCLPCDAKIHCANKLASRHERVWMCEVCEQAPAVVTCKADAAALCVTCDSDIHSANPLARRHERVPVEPFFDTAESVVKSSSVLNFLVPNETNASACDGVHHHEEVEVASWLLSNPSFNSKLVDGFELKPPGADHLFFNEMDSFIDFEYPNPVNNHSAINDSVVPVQTKPLSTPVINHTHSPENCYDIDFCRSKLNSFGYQPQSLSHSVSSSSLEVGVVPEGNSMSDISYPLGQNVSNGADLGLPLSGTGNQATQLCGMDREARVLRYREKRKNRKFEKTIRYASRKAYAETRPRIKGRFAKRTDTLSEVDEIYGSAASSVFLTDVQYGVVPTSMGVRVDATYLST 387
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
6 21349276 21351115 - Lsi06G011090.1 Lsi06g01109 665839

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi06g01109 387 CDD Bbox1_BBX-like 22 65 - -
Lsi06g01109 387 PANTHER ZINC FINGER PROTEIN CONSTANS-LIKE 4 9 374 IPR045281 GO:0009909
Lsi06g01109 387 Pfam CCT motif 302 344 IPR010402 GO:0005515
Lsi06g01109 387 SMART bboxneu5 18 65 IPR000315 GO:0008270
Lsi06g01109 387 SMART bboxneu5 66 108 IPR000315 GO:0008270
Lsi06g01109 387 Pfam B-box zinc finger 63 108 IPR000315 GO:0008270
Lsi06g01109 387 ProSiteProfiles Zinc finger B-box type profile. 23 65 IPR000315 GO:0008270
Lsi06g01109 387 ProSiteProfiles Zinc finger B-box type profile. 61 108 IPR000315 GO:0008270
Lsi06g01109 387 PANTHER ZINC FINGER PROTEIN CONSTANS-LIKE 5 9 374 - -
Lsi06g01109 387 CDD Bbox1_BBX-like 66 108 - -
Lsi06g01109 387 ProSiteProfiles CCT domain profile. 302 344 IPR010402 GO:0005515
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi06g01109 - - - csv:101214816 704.131
       

WGDs- Genes

Select Gene_1 Gene_2 Event_name
Lsi06g01109 Lsi11g00747 CCT
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi06g01109 Lsi-Chr6:21349276 Lsi07g00003 Lsi-Chr7:60412 5.81E-10 dispersed
Lsi11g00792 Lsi-Chr11:9260257 Lsi06g01109 Lsi-Chr6:21349276 9.96E-11 dispersed
Lsi11g01136 Lsi-Chr11:19836786 Lsi06g01109 Lsi-Chr6:21349276 2.89E-15 dispersed
Lsi11g01330 Lsi-Chr11:21919157 Lsi06g01109 Lsi-Chr6:21349276 9.93E-10 dispersed
Lsi07g00983 Lsi-Chr7:13335795 Lsi06g01109 Lsi-Chr6:21349276 1.82E-50 transposed
Lsi08g01266 Lsi-Chr8:21077088 Lsi06g01109 Lsi-Chr6:21349276 3.24E-109 transposed
Lsi11g00747 Lsi-Chr11:8272990 Lsi06g01109 Lsi-Chr6:21349276 3.81E-99 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
Vvi11g1077 . . . . . . . . Cmo10g00449 Cmo11g00414 Cma05g00679 . Car05g00623 . Sed08g0523 Cpe04g01287 Cpe18g00605 Bhi02g00794 Tan09g1648 Cmetu02g0351 . Hepe09g0511 . . Cla11g01201 Cam11g1260 Cec11g1272 Cco11g1273 Clacu11g1418 Cmu11g1240 Cre11g1658 . . Cone11ag0169 Cone18ag1317 Lsi06g01109 Csa02g00615 Chy05g00918 Cme02g01520 . . . Bda09g00945 Bpe08g00686 Bpe13g01202 Bma01g00353 Bma06g00924 Sed03g2846 Cmo05g00714 . Cma10g00418 Cma11g00415 Car10g00391 . Cpe11g00603 . Bhi06g01274 Tan08g0825 Cmetu05g0666 . Hepe08g2141 . . Cla06g01299 Cam06g1444 Cec06g1497 Cco06g1497 Clacu06g1404 Cmu06g1365 Cre06g2174 Lsi11g00747 Csa01g02115 Chy02g02191 Cme05g01392
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Lsi08g01266 . 1 337 C2C2-CO-like Transcription Factor Family AT5G24930 60.3 6.0e-81 298.1
Lsi06g01109 CCT 20 374 C2C2-CO-like Transcription Factor Family AT5G24930 50.3 1.1e-55 214.2
Lsi06g01109 CCT 5 374 C2C2-CO-like Transcription Factor Family AT5G57660 50.9 7.0e-66 248.1
Lsi08g01266 . 2 337 C2C2-CO-like Transcription Factor Family AT5G57660 51.3 4.3e-55 212.2
Lsi10g00033 . 1 416 C2C2-CO-like Transcription Factor Family AT3G07650 54.7 2.3e-91 332.8
Lsi11g01330 . 1 407 C2C2-CO-like Transcription Factor Family AT3G07650 54.5 4.7e-89 325.1
Lsi10g00033 . 1 416 C2C2-CO-like Transcription Factor Family AT5G48250 54.8 1.4e-88 323.6
Lsi11g01330 . 1 407 C2C2-CO-like Transcription Factor Family AT5G48250 55.5 3.4e-87 318.9
Lsi10g00033 . 1 416 C2C2-CO-like Transcription Factor Family AT5G48250 54.8 1.4e-88 323.6
Lsi11g01330 . 1 407 C2C2-CO-like Transcription Factor Family AT5G48250 55.5 3.4e-87 318.9
Lsi11g01136 . 1 207 C2C2-CO-like Transcription Factor Family AT1G75540 55.0 5.4e-52 201.8
Lsi07g00290 . 1 298 C2C2-CO-like Transcription Factor Family AT1G78600 50.9 6.1e-77 284.6
Lsi07g00267 CCT,ECH 1 184 C2C2-CO-like Transcription Factor Family AT2G21320 63.0 7.1e-56 213.8
Lsi01g00620 . 1 117 C2C2-CO-like Transcription Factor Family AT2G21320 76.9 4.5e-50 194.5
Lsi07g00267 CCT,ECH 1 183 C2C2-CO-like Transcription Factor Family AT4G38960 64.5 1.1e-57 219.9
Lsi01g00620 . 1 110 C2C2-CO-like Transcription Factor Family AT4G38960 80.9 1.4e-49 193.0
Lsi11g01136 . 1 197 C2C2-CO-like Transcription Factor Family AT4G39070 59.9 7.7e-56 214.2
       

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
OG0003973 3 1 1 3 2 1 2 1 1 2 1 1 2 2 2 2 1 2 2 1 1 1 1 1 1 1 1 2 1 0 43
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
25509 PF00643 zf-B_box 8.10E-07 No_clan Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi06g01109 Lsi_Chr06 FPKM 5.673214 5.220513 1.545555 1.393622 2.360803 2.020122 2.10716 4.936498 4.310458 4.560389