Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma17g00115 ATGCAAATCTCTTTACAGTCGCCGCTGCCACTTTGCCGGAGCTCCTCCACCGTCGAAACCCCTCCAATTAGGAAACTCAAATTACTCACTCTGCCACCGCCGTCGCCGTCGCCGTCGCCGCCCAAAGTGGTGTCGACTCCGCTTCCGCATCGGATCAACCCATTTCAGAATTTGGCGGCGTCGCTGCTGGACGCTGTTGAGTCGTCGCTGATCGTTGATAAATTGCCGAAAACGGTTGACCCGGCGGTTCAAATTTCGGGTAATTTCTCTCCGGTTCCCGAGTGTCCCGTTCGCCACGACCTTGAAATCATCGGCAATTTACCTGCATGCTTACGTGGCGTTTATTTACGAAACGGCGCTAATCCCATGCATGCACCCATAGGTGGGCACCACTTGTTTGACGGTGATGGAATGATCCACGCCGTTACATTTCACGGAGGTAACGAAGCTAGTTACAGCTGCCGGTTCACTCGTACAAGCCGGCTCGTGCAGGAAGTCGCTTTGGGCCGACCGGTTTTCCCCAAGCCGATCGGCGAGCTTCATGGTCACCAAGGACTGGCTAGGCTCGCAATCTTTTTAGCTCGGGCCGGGATTGGGTTAATCGACAGCTCGAAAGGGACAGGTGTCGCCAACGCCGGTTTGGTTTATTTCAACGGTCGATTATTAGCTTTATCCGAAGATGATCTTCCGTATCACGTCAAAATCAGAGATGGCGGAGATCTCGAAACGATCGGACGGTTTAGCTTTAACAGTCAGATTAGCTGTCCAATGATCGCTCATCCTAAAGTGGATCCCATTTTAGGCGATCTTCACGGTTTGAGTTACAACATGATTAAAAAACCGTATTTGAAATATTTACGGTTCGACCGGTTGGGGAAAAAAGTTCGTGACGTGGATATCACCCTCCGTGACCCGACGATGATCCACGATTTCGCGATAACGGAAAACCACGTCGTGATACCAGATCATCAGGTGGTTTTCAAGTTATCCGAAATGGTTCGGGGCGGGTCTCCCGTCGTGTTCGACTCGAACAAAACTTCCCGGTTCGGAATCCTACCAAAATCCGGAGTCGACGAGACCGGAATTGTTTGGATTGACGTGCCGGATTGTTTCTGCTTCCATTTATGGAATGCGTGGGAGGAAACCGGCAGTAACGGCGAGAAAACCGTTGTTGCTGTCGGGTCGTGTATGAACCCGCCGGATTCTATTTTCAACGACCGGGACCAGGCGTTGACCATTGAGCTGACGGAAATCCGGATGGACATGAGGAACCGAAAGGCGACCCGTCGGGTTTTCGGATCGGGTATGAATTTGGAAGCGGGTCAGGTGAACCGGAAGTTGGTAGGGCGGAGGACCCGATTCGTTTACATGGCGATAGCAGAGCCGTGGCCGAAGTGCTCCGGCATTGCGAAGGTAGATTTAGAAACTGGAAAAGTGAAGAAGTTTCTATATGGCGACGGTCGGTTCGGCGGCGAACCGTTTTACGTGTCGGAAAATGGTAATTCCGGCGAAGATGAGAATGAGGATGGAGGGTATGTTGTAGGGTTTGTAAGAGATGAGAAGCGGCAGAGATCGGAGTTGGTGGTGGTTAAGGCGGCAGAGATGAAGGAAGTGGCGGCGGTTAGACTTCCGGCGAGGGTTCCTTACGGATTTCACGGCACATTTGTTAGTGAAGAAGAGTTGAAGGGTCAAGCTCCGAACTAG 1704 51.94 MQISLQSPLPLCRSSSTVETPPIRKLKLLTLPPPSPSPSPPKVVSTPLPHRINPFQNLAASLLDAVESSLIVDKLPKTVDPAVQISGNFSPVPECPVRHDLEIIGNLPACLRGVYLRNGANPMHAPIGGHHLFDGDGMIHAVTFHGGNEASYSCRFTRTSRLVQEVALGRPVFPKPIGELHGHQGLARLAIFLARAGIGLIDSSKGTGVANAGLVYFNGRLLALSEDDLPYHVKIRDGGDLETIGRFSFNSQISCPMIAHPKVDPILGDLHGLSYNMIKKPYLKYLRFDRLGKKVRDVDITLRDPTMIHDFAITENHVVIPDHQVVFKLSEMVRGGSPVVFDSNKTSRFGILPKSGVDETGIVWIDVPDCFCFHLWNAWEETGSNGEKTVVAVGSCMNPPDSIFNDRDQALTIELTEIRMDMRNRKATRRVFGSGMNLEAGQVNRKLVGRRTRFVYMAIAEPWPKCSGIAKVDLETGKVKKFLYGDGRFGGEPFYVSENGNSGEDENEDGGYVVGFVRDEKRQRSELVVVKAAEMKEVAAVRLPARVPYGFHGTFVSEEELKGQAPN 567
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
17 563805 565508 - CmaCh17G001150.1 Cma17g00115 312010

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma17g00115 567 PANTHER 9-CIS-EPOXYCAROTENOID DIOXYGENASE NCED6, CHLOROPLASTIC 48 564 - -
Cma17g00115 567 PANTHER BETA-CAROTENE DIOXYGENASE 48 564 IPR004294 GO:0016702
Cma17g00115 567 Pfam Retinal pigment epithelial membrane protein 93 557 IPR004294 GO:0016702
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma17g00115 K09840 NCED; 9-cis-epoxycarotenoid dioxygenase [EC:1.13.11.51] - csv:101221572 950.658
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma12g00252 Cma-Chr12:1265328 Cma17g00115 Cma-Chr17:563805 2.38E-19 dispersed
Cma16g00460 Cma-Chr16:2304169 Cma17g00115 Cma-Chr17:563805 0 dispersed
Cma16g00501 Cma-Chr16:2555440 Cma17g00115 Cma-Chr17:563805 3.56E-103 dispersed
Cma17g00115 Cma-Chr17:563805 Cma17g00958 Cma-Chr17:7117222 1.76E-103 dispersed
Cma17g00115 Cma-Chr17:563805 Cma03g01404 Cma-Chr3:8847545 0 transposed
       

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
Vvi5g851 . . . . . . . . . Cmo17g00118 . . . . . . . . . . . . . . Cla06g00740 Cam06g0791 Cec06g0797 . Clacu06g0790 Cmu06g0764 Cre06g1544 . . . . . . . . . . . . . . . . . . . . Cma17g00115 . Car17g00102 Cpe12g00101 . . . . . . . . . . . . . . . Lsi09g01160 . . Cme05g00659
       

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
OG0013527 0 1 0 0 0 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 26
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cma17g00115 Cma_Chr17 FPKM 0.156103 0.088069 2.466876 2.482475 0.058204 0.39293 0.307246 0.041906 0.0 0.031326