Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi02g00346 ATGTTTCAAAGAAACATTAATCGAAGAGTAAAGAAGACGAAGACGAAGATTGTTTTTCTCCATCTTTGCCCACCAAAACCTAGCTTCTTCCTCTCATGTCGCAACTTCACTACCCAATCTAGCTCCGCCCTAGACACCGCCACCGCCGCCGCTGCCACAGATATCGCCAATCTTGTCCTCCAATCTGACCCCAAAAGCTTGAGAGGATCCCTCCATGGATTACAAGTTCAATTTACCCCTGAACTCGTGGACAAGGTTCTCAAGCGCCTATGGTTCCATGGACCGAAAGCGATGCAATTCTTCAAACACCTTGAGTACCATCCATCTTATGCCCATTCTTCGTCTTCCTTCGATCACGCCATCGACATTGCAGGCCGTATGCGCGACTACAAGACCGTATGGGCTCTTGTGGCTCGAATGCGAGCTCGCCGGATTGGACCCAGTTCAAAAACCTTCGCAATTATAGCTGAGAGGTTCGTCGGCGCTGGAAAACCAGACAGAGCGATCAAGGTTTTCTTGTCGATGCGGGAGCATGGCTGTCGTCAGGACTTGCATTCGTTCAACACCATTCTTGACATTCTCTGTAAGTCAAAACGTGTAGAAATGGCTTACAATCATCTGTTTAAAGTTTTGAGAGGAAAATTTAAGGCTGATGTTGTTAGTTATAACATAATTGCAAATGGGTGGTGTTTGATTAAGCGTACACCCAAAGCGTTGGAGGTCTTGAAGGAGATGGTGGAAAGAGGTTTAACTCCAACTATTACTACTTACAATATACTTTTAAAAGGGTATTTTAGAGCTGGTCAGATTAAGGAAGCTTGGGAATTCTTTTTGCAAATGAAAGAAAGGGAAGTTGAAATTGATGTTGTTACTTATACTACTATGGTTCATGGGTTTGGTGTTGTGGGTGAAATTAAAAGGGCTCAAAAGGTTTTCGACGAAATGGTTGGTGAAGGGATTCTTCCTTCAACAGCAACTTACAATGCTATGATACAGGTTTTGTGTAAGAAAGATAGTGTGGAGAATGCAGTATTGTTGTTTGAGGAGATGATTAAAAAGGGTTGTATGCCAAATTTGACCACTTATAACGTGGTTATAAGAGGATTGTGTCATGGGGGCAATATGGATAAGGCTATGGAGTTTATGGAGAGAATGAAAACTGATGGGTGTGAGCCAAACGTTCAGACATATAATGTCGCCATTCGGTATTTTTGTGATGCTGGTGACATAGAGAAGGGGTTGAATGTGTTTGAGAAGATGGGGCATGGAAGTTGTTTACCAAATTTGGATACGTATAATGTTTTGATTAGTGCAATGTTTGTGAGGAAAAAGTCTGAAGATTTAGTGGTTGCTGGGAAGTTGTTGCTTGAGATGATTGATAGAGGATTCCTCCCTCGAAAGTTCACTGTCAATCGAGTTCTCAATGGGCTTTTGCTGACGGTGCCTTCATTTGATTTTGTTGTGAAGCTGGTCACTTCAGAACCACTTCCATACTTCCTGAAGATGTCTAACCAGATTTTGAACTACACTTATGGATCCGGAGTGTTTGAATGGTTTATGGATGGACAAATCTGCGGCGGCGGCGGTGGTGACGGTGACGGCGACGACTTCATGGCGGCTCTGCCATCCTCTTCCGCTTTACCGGATTCTTCTTCCTCCAGACACCATACTTACAGTAGAAAGCAGAAATCCCTTGGTCTTTTATGTTCAAATTTTTTGAGCTTGTATAACCACGATGGAGTCCATTCGATTGGGCTTGACGATGCCGCAACGCGATTAGGTGTGGAAAGGCGGCGGATCTATGATATTGTGAATGTTTTGGAGAGCGTCGGGGTTCTATCGAGAAAGGCGAAGAATCAGTACAGCTGGAATGGGTTTGGAGCAATCCCTAAGGCCTTACAAGATCTTAAAGAAGAAGGCTTGAGGGAGAATTACAGTGCATCTGATGGTAACGATTATGCGAAAGTCTCTGATGATGAAGATGACGATGAAAGATTTTCCAATCCAACTGGAAGCCAGACCTCGACTGCAGCTGTGCCGAAATCATCTTCATCATCGTTAAAAGCTGACAATAGAAGGGAAAAGTCATTGGCGCTGCTGACGCAAAATTTTGTTAAGTTATTTATCTGCAGTCACGTGAATATGATTTCCCTTGATGAAGCTGCTAAGCTTTTATTAGGAGATGGCCACAATTCATCAATAATGAGAAGTAAGAAATCCTTAACTTTGCTATTAATTTTAGAATGTGAACTGGGAAATACCCATACAACGGACACGAGAAAGCCTGCGTTTAGGTGGTTGGGAGTGAGAGGTAAAGTCAAGAATGAGCCTACCGTTCTTCCAGAGTCCAGAAAAAGGGCATTTGGAACTGACGTAACAAATGTCAGTTATAAGAAGACCAAGGCTGAAAGTTCAGCTTATCAGGGTTTAAATCATTGCCTCAACATGCAAAAGCTAGTGCAGTGTGAGAATTCTTCGCAAGAGGATAGCCAGAACAGTCAGGATCAAGAATGTGAACGAACTTCCAAGAGCTATCAATTTGGACCCTTTGCTCCAGTAACAGTAGCTAAGGTTGGTGTCTCAGACAATAACAATACGAAGCGGACTCATGACTGGGAAAGCCTTTCCTCAACATTCCGTCCTCAGTATCACAATCAAGCCTTAAAAGAACTTTTCTCCCATTACGTGGAAGCTTGGAAATCATGGTATTCTGAAGCAGTGAAGAAACCTATACAAATATCTTGA 2745 42.99 MFQRNINRRVKKTKTKIVFLHLCPPKPSFFLSCRNFTTQSSSALDTATAAAATDIANLVLQSDPKSLRGSLHGLQVQFTPELVDKVLKRLWFHGPKAMQFFKHLEYHPSYAHSSSSFDHAIDIAGRMRDYKTVWALVARMRARRIGPSSKTFAIIAERFVGAGKPDRAIKVFLSMREHGCRQDLHSFNTILDILCKSKRVEMAYNHLFKVLRGKFKADVVSYNIIANGWCLIKRTPKALEVLKEMVERGLTPTITTYNILLKGYFRAGQIKEAWEFFLQMKEREVEIDVVTYTTMVHGFGVVGEIKRAQKVFDEMVGEGILPSTATYNAMIQVLCKKDSVENAVLLFEEMIKKGCMPNLTTYNVVIRGLCHGGNMDKAMEFMERMKTDGCEPNVQTYNVAIRYFCDAGDIEKGLNVFEKMGHGSCLPNLDTYNVLISAMFVRKKSEDLVVAGKLLLEMIDRGFLPRKFTVNRVLNGLLLTVPSFDFVVKLVTSEPLPYFLKMSNQILNYTYGSGVFEWFMDGQICGGGGGDGDGDDFMAALPSSSALPDSSSSRHHTYSRKQKSLGLLCSNFLSLYNHDGVHSIGLDDAATRLGVERRRIYDIVNVLESVGVLSRKAKNQYSWNGFGAIPKALQDLKEEGLRENYSASDGNDYAKVSDDEDDDERFSNPTGSQTSTAAVPKSSSSSLKADNRREKSLALLTQNFVKLFICSHVNMISLDEAAKLLLGDGHNSSIMRSKKSLTLLLILECELGNTHTTDTRKPAFRWLGVRGKVKNEPTVLPESRKRAFGTDVTNVSYKKTKAESSAYQGLNHCLNMQKLVQCENSSQEDSQNSQDQECERTSKSYQFGPFAPVTVAKVGVSDNNNTKRTHDWESLSSTFRPQYHNQALKELFSHYVEAWKSWYSEAVKKPIQIS 914
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
2 2942389 2955347 + Lsi02G003460.1 Lsi02g00346 655088

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi02g00346 914 Gene3D Tetratricopeptide repeat domain 93 207 IPR011990 GO:0005515
Lsi02g00346 914 Gene3D Tetratricopeptide repeat domain 283 370 IPR011990 GO:0005515
Lsi02g00346 914 Gene3D Tetratricopeptide repeat domain 371 480 IPR011990 GO:0005515
Lsi02g00346 914 MobiDBLite consensus disorder prediction 644 690 - -
Lsi02g00346 914 SUPERFAMILY Winged helix DNA-binding domain 559 623 IPR036390 -
Lsi02g00346 914 SMART E2F_TDP_2 692 768 IPR003316 GO:0005667|GO:0006355
Lsi02g00346 914 SMART E2F_TDP_2 560 625 IPR003316 GO:0005667|GO:0006355
Lsi02g00346 914 Pfam PPR repeat family 252 299 IPR002885 -
Lsi02g00346 914 Pfam PPR repeat family 394 439 IPR002885 -
Lsi02g00346 914 Pfam PPR repeat family 322 371 IPR002885 -
Lsi02g00346 914 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 358 392 IPR002885 -
Lsi02g00346 914 Pfam E2F/DP family winged-helix DNA-binding domain 561 625 IPR003316 GO:0005667|GO:0006355
Lsi02g00346 914 Gene3D Tetratricopeptide repeat domain 208 282 IPR011990 GO:0005515
Lsi02g00346 914 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 148 182 IPR002885 -
Lsi02g00346 914 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 218 252 IPR002885 -
Lsi02g00346 914 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 323 357 IPR002885 -
Lsi02g00346 914 Gene3D - 687 770 IPR036388 -
Lsi02g00346 914 Gene3D - 555 628 IPR036388 -
Lsi02g00346 914 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 253 287 IPR002885 -
Lsi02g00346 914 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 393 427 IPR002885 -
Lsi02g00346 914 PANTHER TETRATRICOPEPTIDE REPEAT (TPR)-LIKE SUPERFAMILY PROTEIN-RELATED 33 480 - -
Lsi02g00346 914 SUPERFAMILY HCP-like 163 319 - -
Lsi02g00346 914 PANTHER OS02G0679200 PROTEIN 33 480 - -
Lsi02g00346 914 TIGRFAM PPR: pentatricopeptide repeat domain 256 289 IPR002885 -
Lsi02g00346 914 TIGRFAM PPR: pentatricopeptide repeat domain 220 253 IPR002885 -
Lsi02g00346 914 TIGRFAM PPR: pentatricopeptide repeat domain 326 358 IPR002885 -
Lsi02g00346 914 TIGRFAM PPR: pentatricopeptide repeat domain 361 394 IPR002885 -
Lsi02g00346 914 TIGRFAM PPR: pentatricopeptide repeat domain 290 323 IPR002885 -
Lsi02g00346 914 TIGRFAM PPR: pentatricopeptide repeat domain 396 428 IPR002885 -
Lsi02g00346 914 TIGRFAM PPR: pentatricopeptide repeat domain 151 183 IPR002885 -
Lsi02g00346 914 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 288 322 IPR002885 -
Lsi02g00346 914 MobiDBLite consensus disorder prediction 668 686 - -
Lsi02g00346 914 Pfam PPR repeat 162 180 IPR002885 -
Lsi02g00346 914 Pfam PPR repeat 186 205 IPR002885 -
Lsi02g00346 914 Pfam PPR repeat 220 250 IPR002885 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi02g00346 - - - csv:101218969 858.596
       

WGDs- Genes

Select Gene_1 Gene_2 Event_name
Lsi02g00346 Lsi06g01514 CCT
Lsi02g00346 Lsi06g01403 CCT
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi02g00346 Lsi-Chr2:2942389 Lsi01g01407 Lsi-Chr1:12213629 3.86E-11 dispersed
Lsi10g01142 Lsi-Chr10:15738236 Lsi02g00346 Lsi-Chr2:2942389 6.00E-10 dispersed
Lsi01g02003 Lsi-Chr1:26953422 Lsi02g00346 Lsi-Chr2:2942389 1.58E-18 transposed
Lsi02g02683 Lsi-Chr2:33291377 Lsi02g00346 Lsi-Chr2:2942389 2.91E-24 transposed
Lsi04g00655 Lsi-Chr4:5987831 Lsi02g00346 Lsi-Chr2:2942389 5.49E-14 transposed
Lsi04g01777 Lsi-Chr4:24980393 Lsi02g00346 Lsi-Chr2:2942389 1.06E-13 transposed
Lsi04g01853 Lsi-Chr4:25658944 Lsi02g00346 Lsi-Chr2:2942389 5.70E-10 transposed
Lsi06g01403 Lsi-Chr6:24580561 Lsi02g00346 Lsi-Chr2:2942389 6.40E-29 transposed
Lsi06g01450 Lsi-Chr6:25057733 Lsi02g00346 Lsi-Chr2:2942389 3.01E-08 transposed
Lsi08g00461 Lsi-Chr8:12307911 Lsi02g00346 Lsi-Chr2:2942389 9.97E-67 transposed
Lsi08g00890 Lsi-Chr8:17289554 Lsi02g00346 Lsi-Chr2:2942389 6.79E-18 transposed
Lsi09g00650 Lsi-Chr9:7261246 Lsi02g00346 Lsi-Chr2:2942389 9.38E-25 transposed
Lsi09g00932 Lsi-Chr9:11645555 Lsi02g00346 Lsi-Chr2:2942389 1.82E-29 transposed
Lsi09g01117 Lsi-Chr9:17899413 Lsi02g00346 Lsi-Chr2:2942389 7.60E-50 transposed
Lsi02g00346 Lsi-Chr2:2942389 Lsi06g01514 Lsi-Chr6:25572238 1.85E-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
Vvi17g448 . Blo16g00207 . Bda15g00630 Bpe12g00519 . . . Cmo13g00936 . Cma10g00290 Cma11g00217 Car10g00272 Car11g00196 Sed12g2018 Cpe20g00222 Cpe04g01451 Bhi02g00082 Tan09g2024 Cmetu02g1024 . Hepe09g0284 . . Cla06g01532 Cam06g1689 Cec06g1751 Cco06g1749 Clacu06g1656 Cmu06g1603 Cre06g2415 . Cone16ag0131 Cone13ag0030 Cone19ag0038 Lsi02g00346 . . Cme12g01723 . . . . . . . Bma08g00249 Sed08g2544 Cmo10g00309 Cmo11g00219 Cma13g00908 . Car13g00748 . . . Bhi08g01447 Tan05g2046 Cmetu12g1297 Lac10g0416 Hepe07g2255 . . Cla01g01399 Cam01g1461 Cec01g1502 . Clacu01g1485 Cmu01g1380 Cre01g1296 Lsi06g01403 Csa01g00342 Chy02g02400 Cme02g01814
Vvi17g681 Blo04g00746 Blo16g00207 . . . Bpe13g00264 Bma06g00196 . Cmo13g00935 Cmo18g00114 Cma10g00152 . Car10g00143 . Sed08g0171 Cpe20g00223 . Bhi02g00386 Tan09g2196 Cmetu02g0961 . Hepe09g0165 . . Cla06g01632 Cam06g1815 Cec06g1865 Cco06g1871 Clacu06g1773 Cmu06g1715 Cre06g2535 . Cone16ag0131 . . Lsi02g00346 Csa01g00818 Chy12g01298 Cme12g01723 . . . Bda14g00825 . . Bma03g00799 . Sed08g2543 Cmo10g00164 . Cma13g00908 Cma18g00144 Car13g00748 Car18g00138 Cpe09g01047 Cpe18g00824 Bhi08g01449 Tan05g2045 . . . . . Cla01g01399 Cam01g1461 Cec01g1502 . Clacu01g1485 Cmu01g1380 Cre01g1296 Lsi06g01514 Csa01g00185 Chy02g02548 Cme02g01934
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Lsi02g00346 CCT 537 909 E2F-DP Transcription Factor Family AT3G48160 50.8 1.3e-92 337.0
Lsi01g01191 . 332 766 E2F-DP Transcription Factor Family AT2G36010 54.9 3.1e-117 419.1
Lsi10g01142 . 21 490 E2F-DP Transcription Factor Family AT2G36010 50.2 1.9e-114 409.8
Lsi10g01142 . 10 495 E2F-DP Transcription Factor Family AT5G22220 52.1 3.7e-107 385.6
Lsi01g01191 . 328 773 E2F-DP Transcription Factor Family AT5G22220 50.1 6.5e-96 348.2
Lsi10g01142 . 10 495 E2F-DP Transcription Factor Family AT5G22220 52.1 3.7e-107 385.6
Lsi01g01191 . 328 773 E2F-DP Transcription Factor Family AT5G22220 50.1 6.5e-96 348.2
Lsi01g01191 . 332 766 E2F-DP Transcription Factor Family AT2G36010 54.9 3.1e-117 419.1
Lsi10g01142 . 21 490 E2F-DP Transcription Factor Family AT2G36010 50.2 1.9e-114 409.8
Lsi02g00346 CCT 537 909 E2F-DP Transcription Factor Family AT3G48160 50.8 1.3e-92 337.0
       

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
OG0001341 2 8 2 2 1 2 3 2 2 2 2 2 2 2 2 3 2 4 3 2 2 1 2 2 2 2 2 5 4 2 74
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
24754 PF02319 E2F_TDP 1.40E-20 CL0123 Lsi TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi02g00346 Lsi_Chr02 FPKM 0.0 0.0 2.123355 1.666813 1.062738 0.0 0.958807 0.452292 0.0 0.0