Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cla01g01399 ATGTTTCAAAGAATCATTAATCGAAGAGTAAACAAGACGAAGACGAAGGTTGTTTCTCTCCATGTTTCCCCACCGAAACCTACCTTCTTCCTTTCATGTCGCAACTTCACTTCCCAATCTAGCTCCGCCCTAGACACCGCCACCGCCGCCGCGGATATCGCCAATCTTGTCCTCGAATCTGACCCCAAAAGCTTGAGAGGATCCCTCCATGGATTACAAGTTCAATTTACCCCTGAACTTGTGGACAAGGTTCTCAAGCGCCTTTGGTTCCATGGACCGAAAGCGCTGCAATTCTTCAAACACCTTGAGTACCATCCATCTTATGCCCATTCCTCGTCTTCCTTTGACCATGTCATCGACATCGCAGGCCGTATGCGCGACTACAAGACCGTATGGGCTCTAGTGGCTCGAATGCGATCTCGCCGGATTGGACCCAGTTCAAAAACCTTCGCAATTATAGCTGAGAGGTTCGTCGGCGCTGGAAAACCAGACAGAGCAATCAAGGTTTTCTTGTCGATGCGGGAGCATGGCTGTCGTCAGGACCTGCATTCGTTTAACACCATTCTCGACATTCTCTGTAAGTCAAAACGTGTAGAAATGGCTTACAACAATCTGTTTAAGGTTTTGAGAGGAAAATTTAAGGCTGATGTTGTTAGTTATAACATAATTGCAAATGGGTGGTGCTTGATTAAGCGTACACCCAAAGCGTTGGAGGTTTTGAAGGAGATGGTGGAAAGAGGTTTAACTCCAACTATTACTACTTACAATATAGTTTTAAAAGGGTATTTTAGAGCTGGTCAGATTAAGGAAGCTTGGGAATTCTTTTTGCAAATGAAAGAAAGGGAAGTTGAAATTGACGTTGTTACTTATACTACTATGGTTCATGGGTTTGGTGTTGTTGGTGAAATTAAAAGGGCTCGAAAGGTTTTCGACGAGATGGTTGGCGAAGGGGTTCTTCCTTCAACAGCAACTTACAATGCTATGATTCAGGTTTTGTGTAAGAAAGACAGTGTGGAGAATGCAGTATTGTTGTTTGAGGAGATGATTAAAAAGGGTCATGTGCCAAATTTGACCACTTATAACGTGGTTATAAGAGGATTGTGTCATGCGGGTAATATGGAAAAGGCTATGGAGTTTATGGAGAGAATGAAAACTGATGGGTGTGAGCCAAATGTTCAGACATATAATGTCGCTATTCGGTATTTTTGTGATGCTGGTGACATAGAAAAGGGGTTGAATATGTTTGAGAAGATGGGGCAGGGGAGCTGTTTACCAAATTTGGATACGTATAATGTTTTGATTAGTGCAATGTTTGTGAGGAAAAAGTCTGAAGATTTAGTGGCTGCTGGGAAGCTGTTGCTTGAGATGATTGATAGAGGATTCCTCCCTCGAAAGTTCACTTTCAATCGAGTTCTCAATGGTCTTTTGCTGACGGGTAATCAAGGTTTTGCAAATGAGATTTTGAGATCGCAGAGCAAATGTGGTCTTTCAGTGCCTTCATCTGATCTTGTTGTGAAGCTGGTCACCTCAGAACCCGTTCCATTCTTCCTGAAGATGTCAAACAAGATTTTGAACTACACCTGTGGATCCGGAAGTGTTTTAATGGTTTATGGATGGACAAGACAAGATAATGTGGCAACTATCAGAAGCAGAGCAGTCGATTGCCGAAGTCTTCACATCAAACATATCTGCGGCGGCGGCGACGACGACGACTTCATGGCGGCTCTGCCATCCTCTTCCGCTGTACCGGATTCTTCTTCCTCCAGACACCATACCTACAGTAGGAAGCAGAAATCCCTTGGTCTTTTATGTTCAAACTTTTTGAGCTTGTATAACCACGATGGAGTCCATTCGATTGGGCTTGACGATGCAGCATCGCGATTAGGTGTGGAAAGGCGGCGGATCTACGATATTGTGAATGTTTTGGAGAGCGTCGGGGTTCTGTCGAGAAAGGCGAAGAATCAGTACAGCTGGAATGGGTTTGGAGCAATCCCTAAGGCCTTACAAGATCTTAAAGAAGAGGGCTTGAGGGAGAATTGCAGTGCATCCGATGGTAACGATTATGCGAAAGTATCGGATGATGAAGATGAGGATGAAAGATTTTCCAATCCAACCGGAAGCCAGACCTCAACTGCAGCTGTGCCAAAATCATCTTCATCATCATTAAAAGCCGACAATAGAAGGGAAAAGTCTTTGGCGCTCCTGACTCAAAATTTTGTTAAGCTATTTATCTGCAGTCATGTGAATATGATTTCCCTTGATGAAGCTGCTAAGCTTTTATTAGGAGATGGCCACAATTCATCAATAATGAGAACAAAAGTAAGGAGGCTATATGACATTGCAAATGTGCTGTCTTCTATGAATCTGATCGAAAAGACCCATACAACAGATACTAGAAAGCCTGCTTTTAGGTGGTTGGGAGTGAGGGGTAAAGTCAAGAATGAGCCTACCGTTCTTACAGAGTCCAGAAAAAGAGCATTTGGAACTGATGTAACTAATGTCAGTTATAAGAAGACTAAAGCTGAAAGTTCAGCGTATCAGGGTTTAAATCATTGCCTCAACATGCAAAAGCTAGTGCAGTGTGAGAATTCTTCGCAAGAGGATAGCCAAAATAGTCAGGATCAAGAATGCGAACGAACTTCCAAGAGCTATCAATTTGGACCCTTTGCTCCGGTAACAGTAGCTAAAGTTGGTGTCTCAGACAATAACAATACGAAGCGGACTCATGACTGGGAAAGCCTTTCCTCAACATTCCGTCCTCAGTATCACAATCAAGCCTTAAACGAACTTTTCTCCCATTACGTGGAAGCTTGGAAATCATGGTATTCTGAAGCAGTGAAGAAACCTATACAAATATCTTGA 2862 43.19 MFQRIINRRVNKTKTKVVSLHVSPPKPTFFLSCRNFTSQSSSALDTATAAADIANLVLESDPKSLRGSLHGLQVQFTPELVDKVLKRLWFHGPKALQFFKHLEYHPSYAHSSSSFDHVIDIAGRMRDYKTVWALVARMRSRRIGPSSKTFAIIAERFVGAGKPDRAIKVFLSMREHGCRQDLHSFNTILDILCKSKRVEMAYNNLFKVLRGKFKADVVSYNIIANGWCLIKRTPKALEVLKEMVERGLTPTITTYNIVLKGYFRAGQIKEAWEFFLQMKEREVEIDVVTYTTMVHGFGVVGEIKRARKVFDEMVGEGVLPSTATYNAMIQVLCKKDSVENAVLLFEEMIKKGHVPNLTTYNVVIRGLCHAGNMEKAMEFMERMKTDGCEPNVQTYNVAIRYFCDAGDIEKGLNMFEKMGQGSCLPNLDTYNVLISAMFVRKKSEDLVAAGKLLLEMIDRGFLPRKFTFNRVLNGLLLTGNQGFANEILRSQSKCGLSVPSSDLVVKLVTSEPVPFFLKMSNKILNYTCGSGSVLMVYGWTRQDNVATIRSRAVDCRSLHIKHICGGGDDDDFMAALPSSSAVPDSSSSRHHTYSRKQKSLGLLCSNFLSLYNHDGVHSIGLDDAASRLGVERRRIYDIVNVLESVGVLSRKAKNQYSWNGFGAIPKALQDLKEEGLRENCSASDGNDYAKVSDDEDEDERFSNPTGSQTSTAAVPKSSSSSLKADNRREKSLALLTQNFVKLFICSHVNMISLDEAAKLLLGDGHNSSIMRTKVRRLYDIANVLSSMNLIEKTHTTDTRKPAFRWLGVRGKVKNEPTVLTESRKRAFGTDVTNVSYKKTKAESSAYQGLNHCLNMQKLVQCENSSQEDSQNSQDQECERTSKSYQFGPFAPVTVAKVGVSDNNNTKRTHDWESLSSTFRPQYHNQALNELFSHYVEAWKSWYSEAVKKPIQIS 953
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
1 28423998 28435305 - ClCG01G014130.1 Cla01g01399 264988

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cla01g01399 953 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 251 285 IPR002885 -
Cla01g01399 953 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 146 180 IPR002885 -
Cla01g01399 953 TIGRFAM PPR: pentatricopeptide repeat domain 359 392 IPR002885 -
Cla01g01399 953 TIGRFAM PPR: pentatricopeptide repeat domain 288 321 IPR002885 -
Cla01g01399 953 TIGRFAM PPR: pentatricopeptide repeat domain 254 287 IPR002885 -
Cla01g01399 953 TIGRFAM PPR: pentatricopeptide repeat domain 218 251 IPR002885 -
Cla01g01399 953 TIGRFAM PPR: pentatricopeptide repeat domain 394 426 IPR002885 -
Cla01g01399 953 TIGRFAM PPR: pentatricopeptide repeat domain 324 356 IPR002885 -
Cla01g01399 953 TIGRFAM PPR: pentatricopeptide repeat domain 149 181 IPR002885 -
Cla01g01399 953 Gene3D Tetratricopeptide repeat domain 207 313 IPR011990 GO:0005515
Cla01g01399 953 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 391 425 IPR002885 -
Cla01g01399 953 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 216 250 IPR002885 -
Cla01g01399 953 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 286 320 IPR002885 -
Cla01g01399 953 SUPERFAMILY Winged helix DNA-binding domain 729 808 IPR036390 -
Cla01g01399 953 SMART E2F_TDP_2 727 807 IPR003316 GO:0005667|GO:0006355
Cla01g01399 953 SMART E2F_TDP_2 595 660 IPR003316 GO:0005667|GO:0006355
Cla01g01399 953 Pfam PPR repeat 218 248 IPR002885 -
Cla01g01399 953 Pfam PPR repeat 160 178 IPR002885 -
Cla01g01399 953 Gene3D - 590 663 IPR036388 -
Cla01g01399 953 Gene3D - 722 809 IPR036388 -
Cla01g01399 953 MobiDBLite consensus disorder prediction 678 725 - -
Cla01g01399 953 PANTHER TETRATRICOPEPTIDE REPEAT (TPR)-LIKE SUPERFAMILY PROTEIN-RELATED 36 495 - -
Cla01g01399 953 Pfam E2F/DP family winged-helix DNA-binding domain 729 807 IPR003316 GO:0005667|GO:0006355
Cla01g01399 953 Pfam E2F/DP family winged-helix DNA-binding domain 596 660 IPR003316 GO:0005667|GO:0006355
Cla01g01399 953 MobiDBLite consensus disorder prediction 703 721 - -
Cla01g01399 953 SUPERFAMILY HCP-like 220 381 - -
Cla01g01399 953 Pfam PPR repeat family 320 369 IPR002885 -
Cla01g01399 953 Pfam PPR repeat family 392 437 IPR002885 -
Cla01g01399 953 Pfam PPR repeat family 250 297 IPR002885 -
Cla01g01399 953 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 356 390 IPR002885 -
Cla01g01399 953 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 321 355 IPR002885 -
Cla01g01399 953 Gene3D Tetratricopeptide repeat domain 383 512 IPR011990 GO:0005515
Cla01g01399 953 PANTHER OS02G0679200 PROTEIN 36 495 - -
Cla01g01399 953 Gene3D Tetratricopeptide repeat domain 314 382 IPR011990 GO:0005515
Cla01g01399 953 Gene3D Tetratricopeptide repeat domain 90 206 IPR011990 GO:0005515
Cla01g01399 953 SUPERFAMILY Winged helix DNA-binding domain 594 658 IPR036390 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cla01g01399 - - - csv:101218969 893.649
       

WGDs- Genes

Select Gene_1 Gene_2 Event_name
Cla01g01399 Cla06g01632 CCT
Cla01g01399 Cla06g01532 CCT
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cla01g01399 Cla-Chr1:28423998 Cla08g00621 Cla-Chr8:18186900 1.40E-65 dispersed
Cla08g01431 Cla-Chr8:27149914 Cla01g01399 Cla-Chr1:28423998 9.27E-08 dispersed
Cla01g00870 Cla-Chr1:10837622 Cla01g01399 Cla-Chr1:28423998 1.99E-20 transposed
Cla05g00880 Cla-Chr5:8677246 Cla01g01399 Cla-Chr1:28423998 6.15E-13 transposed
Cla06g01532 Cla-Chr6:28875341 Cla01g01399 Cla-Chr1:28423998 3.70E-29 transposed
Cla01g01399 Cla-Chr1:28423998 Cla06g01632 Cla-Chr6:29848864 1.39E-129 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
Cla01g01399 CCT 591 948 E2F-DP Transcription Factor Family AT3G48160 56.4 1.1e-102 370.5
Cla02g02172 . 10 466 E2F-DP Transcription Factor Family AT5G22220 50.4 1.6e-100 363.6
Cla04g01021 . 138 525 E2F-DP Transcription Factor Family AT5G22220 52.9 1.8e-91 333.6
Cla08g01431 . 171 425 E2F-DP Transcription Factor Family AT1G47870 54.5 4.9e-66 248.8
Cla02g02172 . 10 466 E2F-DP Transcription Factor Family AT5G22220 50.4 1.6e-100 363.6
Cla04g01021 . 138 525 E2F-DP Transcription Factor Family AT5G22220 52.9 1.8e-91 333.6
Cla08g01431 . 171 425 E2F-DP Transcription Factor Family AT1G47870 54.5 4.9e-66 248.8
Cla01g01399 CCT 591 948 E2F-DP Transcription Factor Family AT3G48160 56.4 1.1e-102 370.5
       

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
60420 PF02319 E2F_TDP 8.60E-20 CL0123 Cla TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cla01g01399 Cla_Chr01 FPKM 3.113288 3.763531 4.121134 5.503279 4.816287 3.911551 5.697115 5.422594 4.840647 5.867916