Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cco04g1250 ATGCGTGGCGCCTCTCGAGCTCCGAACCGCTCGGAGCCACTGCCTCAGTCCCAAACTGCCCAGATCCTGCCGCCTCTCAAGCGCCACCTTGCTTTTGACTCCGCTAAGCCGCCCTTCGCTCCTCCGGGTCATTATTACCACTTCGGCGGCGGTTCCTCCAATGCTATTGATCAACAACCTGATTCCATCGTTGTTAAACCTCTTAAACCAAAGCAGAAGGGTGTCATGTATAACAATGTGGTTGAATCGAACGATTACAGTCATGATCAGGGATCTTCTCTTAGTTCTGTGCAGACACCTGTGTCTGGAAAAGGAGGAAGGGTGTACAATAAGTCGAAGACTTCAAGGAAAACTACATCTGGGCCTCAAACACCTATCTCAGACACTAGCACTTATTCTCCCCTTACTCCAGCTGGAAACTGTCGATATGACAGTTCTTTAGGTCTTCTGACAAAAAAATTCATCAATTTAATTAAGCAAGCAAGGGATGGCATTCTTGACTTGAACAAAGCTGCAGAAACTTTGCAGGTGCAGAAAAGGAGAATATATGACATAACAAATGTTTTGGAAGGCATAGGTCTCATAGAAAAGAAGCTGAAAAACATAATATACTGGAAAGGTTTCAATCAACAAATTCCAGGAAATGTGGATAGCGATACTTCTATGTTGCAGGTGGATGTTGAAAACCTTTCTTTTGAAGAGCGTAGATTAGATGATAAGATAAGAGTAATGCAGGAAAGACTGAGGAATCTGAGTGAAGACGAAAATATCCAAAAGTGGCTCTTTGTGACAGAAGAAGACATCAAAAACTTGCCTTGCTTTCAGAATGAAACGCTGATAGCAATTAAAGCTCCTCATGGAACCACCTTGGAAGTTCCTGATCCTGATGAAGCTGTTGATTATCCACAGAGAAGATATCGGATAGTTCTTAGGAGTACGATGGGTCCTATTGATGTATATCTTGTCAGTCAATTCGAGGAAAAGTTTGAGGAGATGAATGTGGTTCCGCCACCTAGTAGCTTCCTACATGCTTCCAGTTCAGGATCAAACGAACATCTAGCAACAGAAGCAATCATCGGGGAGAGTAGTAGAAACGAAGTTGAACCTCAAGCTCATCTGTCCCAACACAGCAGCAGCTGTGATGTGAATGGTTCCAACGAGTTTTCTGGTGGAATGATGAAGATTATTCCTTCAGATGTTGATAATGATGCAGATTACTGGCTGTTATCAGATGCTGAAGTTAGCATTACAGATATGTGGAGAACCGATTCTACAGCAGATATTGCATGGGATCAATCAGATATGGTTCCTCATGACTTTTTAATATCTGATGTCAGTGCTCAAAGGCCAAGACCAGGAAGCCCACATTCAGAGACAGCCGAAGCACCATCTGATAATACAATTGCGAGCGCTAGTCGGGCGGGGAGTGCAGAGGAAATAGAAACAAACTTTTGTAAGGTTGCAGATGGGAAGAAGCATGTAAGATAG 1488 43.41 MRGASRAPNRSEPLPQSQTAQILPPLKRHLAFDSAKPPFAPPGHYYHFGGGSSNAIDQQPDSIVVKPLKPKQKGVMYNNVVESNDYSHDQGSSLSSVQTPVSGKGGRVYNKSKTSRKTTSGPQTPISDTSTYSPLTPAGNCRYDSSLGLLTKKFINLIKQARDGILDLNKAAETLQVQKRRIYDITNVLEGIGLIEKKLKNIIYWKGFNQQIPGNVDSDTSMLQVDVENLSFEERRLDDKIRVMQERLRNLSEDENIQKWLFVTEEDIKNLPCFQNETLIAIKAPHGTTLEVPDPDEAVDYPQRRYRIVLRSTMGPIDVYLVSQFEEKFEEMNVVPPPSSFLHASSSGSNEHLATEAIIGESSRNEVEPQAHLSQHSSSCDVNGSNEFSGGMMKIIPSDVDNDADYWLLSDAEVSITDMWRTDSTADIAWDQSDMVPHDFLISDVSAQRPRPGSPHSETAEAPSDNTIASASRAGSAEEIETNFCKVADGKKHVR 495
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 27876788 27883794 - CcPI632755_04g012500.1 Cco04g1250 176475

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cco04g1250 495 SUPERFAMILY Winged helix DNA-binding domain 142 205 IPR036390 -
Cco04g1250 495 Gene3D - 136 210 IPR036388 -
Cco04g1250 495 PANTHER TRANSCRIPTION FACTOR E2F 59 422 IPR015633 GO:0000978(PANTHER)|GO:0000978(InterPro)|GO:0000981(PANTHER)|GO:0006357(InterPro)|GO:0006357(PANTHER)|GO:0090575(PANTHER)
Cco04g1250 495 MobiDBLite consensus disorder prediction 1 38 - -
Cco04g1250 495 Pfam E2F/DP family winged-helix DNA-binding domain 144 207 IPR003316 GO:0005667(InterPro)|GO:0006355(InterPro)
Cco04g1250 495 MobiDBLite consensus disorder prediction 459 477 - -
Cco04g1250 495 Coils Coil 234 254 - -
Cco04g1250 495 Gene3D - 214 324 - -
Cco04g1250 495 MobiDBLite consensus disorder prediction 83 137 - -
Cco04g1250 495 MobiDBLite consensus disorder prediction 367 385 - -
Cco04g1250 495 MobiDBLite consensus disorder prediction 446 481 - -
Cco04g1250 495 Pfam E2F transcription factor CC-MB domain 223 323 IPR032198 GO:0046983(InterPro)
Cco04g1250 495 SUPERFAMILY E2F-DP heterodimerization region 221 324 IPR037241 -
Cco04g1250 495 SMART E2F_TDP_2 142 207 IPR003316 GO:0005667(InterPro)|GO:0006355(InterPro)
Cco04g1250 495 MobiDBLite consensus disorder prediction 363 385 - -
Cco04g1250 495 CDD E2F_DD 223 324 IPR032198 GO:0046983(InterPro)
Cco04g1250 495 FunFam E2F transcription factor 1 136 209 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cco04g1250 K06620 - - csv:101212480 744.962
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cco04g1250 Cco-Chr4:27876788 Cco06g1871 Cco-Chr6:28935436 1.00E-09 dispersed
Cco08g1629 Cco-Chr8:27819065 Cco04g1250 Cco-Chr4:27876788 1.20E-60 transposed
Cco02g2395 Cco-Chr2:36291562 Cco04g1250 Cco-Chr4:27876788 8.30E-137 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
Vvi8g917 . Blo12g00527 . Bda03g00671 . . . . . . . Cma07g00828 Car03g01015 Car07g00815 . Cpe10g00310 . Bhi03g01787 Tan03g1249 . . . . . Cla04g01021 Cam04g1063 Cec04g1183 Cco04g1250 Clacu04g1090 Cmu04g1074 Cre04g1133 Cone3ag0151 Cone10ag0135 . . Lsi01g01191 Csa06g02714 Chy08g00971 . . . . . Bpe04g00633 . . Bma04g00537 . Cmo03g01117 Cmo07g00858 . . . . . Cpe19g00497 . . . . . . . . . . . . . . . . . Cme08g01161
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Cco01g1432 . 38 396 E2F-DP Transcription Factor Family AT3G48160 56.5 1.3e-103 373.6
Cco10g0876 . 81 284 E2F-DP Transcription Factor Family AT5G02470 55.1 6.4e-60 228.0
Cco02g2395 . 51 471 E2F-DP Transcription Factor Family AT2G36010 55.1 3.1e-120 429.1
Cco04g1250 . 11 467 E2F-DP Transcription Factor Family AT2G36010 54.2 1.0e-118 424.1
Cco02g2395 . 40 476 E2F-DP Transcription Factor Family AT5G22220 57.6 7.7e-116 414.5
Cco04g1250 . 11 460 E2F-DP Transcription Factor Family AT5G22220 50.3 1.2e-97 354.0
Cco08g1629 . 154 413 E2F-DP Transcription Factor Family AT1G47870 53.1 2.1e-66 250.0
Cco02g2395 . 169 445 E2F-DP Transcription Factor Family AT1G47870 50.9 6.4e-63 238.4
Cco10g0876 . 81 284 E2F-DP Transcription Factor Family AT5G02470 55.1 6.4e-60 228.0
Cco02g2395 . 40 476 E2F-DP Transcription Factor Family AT5G22220 57.6 7.7e-116 414.5
Cco04g1250 . 11 460 E2F-DP Transcription Factor Family AT5G22220 50.3 1.2e-97 354.0
Cco02g2395 . 51 471 E2F-DP Transcription Factor Family AT2G36010 55.1 3.1e-120 429.1
Cco04g1250 . 11 467 E2F-DP Transcription Factor Family AT2G36010 54.2 1.0e-118 424.1
Cco08g1629 . 154 413 E2F-DP Transcription Factor Family AT1G47870 53.1 2.1e-66 250.0
Cco02g2395 . 169 445 E2F-DP Transcription Factor Family AT1G47870 50.9 6.4e-63 238.4
Cco01g1432 . 38 396 E2F-DP Transcription Factor Family AT3G48160 56.5 1.3e-103 373.6
       

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
OG0005036 1 2 1 2 1 1 2 1 1 1 1 1 2 1 1 2 1 2 2 1 1 1 1 1 1 1 1 3 3 0 40
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
59049 PF16421 E2F_CC-MB 5.20E-33 No_clan Cco TF