Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma05g00005 ATGAGACGCCTGTTCTTCCCCAAGCCTTCCATGGCCTCCTCCATCCTTGCCCCATCCCACTTTTATTCCCTTTCTATCCCTTCCGCACGTCTATGTCCTCCATTGCACCTAATTTCTTTCCTTTCTTCTGCTGGTCGCCGCTTTACGACTGCCTCTTCCGCATCACCTAAGCCGTTATTTGCTCTTGACGATTCTTCACCTGATTTCTCTATGCCTGAAAAAAAGGAAATCCTGCACACTGATTCCAAGATGCTTCTAAAGGGTCTGTCTTACACTGAACTTGAGAAATGGGTTAAAGCTCGAGGATACAGACCTGGTCAAGCTTTAATGCTGTGGAAACGTCTTTATGGGGATAACGTTTGGGCTCATTCCGGCGATGAATTAGAAGGTTTGAACAAAGATTTTAAGAAAATGTTGATTGAAAAAGCTGAATTCAGGGCGCTATCTTTGAGGGAAATTCTCCCTTCATCTGATGGAACGAGGAAGATTTTGTTCAATCTGGAAGATGGATTGATAATAGAAACTGTTGTTATACCTTGCGATAGAGGCAGGACTACTGTTTGCGTTTCAAGTCAAGTGGGCTGTGCTATGAACTGTCAATTCTGCTACACTGGCAGGATGGGCCTGAAGAGACATCTGACTGCTGCTGAGATAGTAGAACAGGCAGTTTTTGCGAGGCGTTTGCTTACTTGTGAAGTTGGGTTAATTACTAATGTTGTGTTTATGGGAATGGGAGAGCCACTTCACAACATTGACAATGTCATTAAAGCAGCAAATATAATGGTTGATGAACAAGGCCTTCATTTCAGTCCTCGCAAGGTCACTGTTTCAACCAGTGGACTTGTTCCCCAGCTCAAACGTTTCCTTCATGATTGTAACTGCGCTTTAGCCGTTAGTTTGAATGCAACTACTGATGAGGTTAGAAATTGGATCATGCCAATTAACCGGAAGTATAAGTTAGGCTTGCTTCTTCAGACTTTACGTGAGGAACTTCGCTGCAAACACAATTACAAGGTTCTTTTTGAATATGTGATGCTTGCTGGGGTTAATGACAGCATTGAAGATGCGAAGAGGATTGTTGATCTTGTCCAGGGTATTCCATGCAAGATTAACCTTATTTCATTTAATCCACATTGTGGATCTCAATTTAGACCTACCTGCAAGGAGAAGATGATCGAGTTTCGGAATGTTTTGGCTGCAGCCGGGTTGACTGTTCTCTTGCGACTAAGCAGAGGTGATGACCAGATGGCTGCCTGTGGTCAGTTAGGCAAACCTGGTACAATTCAAGCTCCTTTACTCCGTGTACCGGATCAATTCCAAATGGCAATGAAATTGGCTCCCTAG 1344 43.68 MRRLFFPKPSMASSILAPSHFYSLSIPSARLCPPLHLISFLSSAGRRFTTASSASPKPLFALDDSSPDFSMPEKKEILHTDSKMLLKGLSYTELEKWVKARGYRPGQALMLWKRLYGDNVWAHSGDELEGLNKDFKKMLIEKAEFRALSLREILPSSDGTRKILFNLEDGLIIETVVIPCDRGRTTVCVSSQVGCAMNCQFCYTGRMGLKRHLTAAEIVEQAVFARRLLTCEVGLITNVVFMGMGEPLHNIDNVIKAANIMVDEQGLHFSPRKVTVSTSGLVPQLKRFLHDCNCALAVSLNATTDEVRNWIMPINRKYKLGLLLQTLREELRCKHNYKVLFEYVMLAGVNDSIEDAKRIVDLVQGIPCKINLISFNPHCGSQFRPTCKEKMIEFRNVLAAAGLTVLLRLSRGDDQMAACGQLGKPGTIQAPLLRVPDQFQMAMKLAP 447
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
5 22824 26090 - CmaCh05G000050.1 Cma05g00005 294123

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma05g00005 447 Pfam Radical SAM superfamily 190 354 IPR007197 GO:0003824|GO:0051536
Cma05g00005 447 SUPERFAMILY Radical SAM enzymes 183 403 - -
Cma05g00005 447 SFLD adenosine C2 methyltransferase (RlmN-like) 81 424 IPR004383 GO:0006364|GO:0008173
Cma05g00005 447 SFLD Radical SAM 81 424 IPR007197 GO:0003824|GO:0051536
Cma05g00005 447 ProSiteProfiles Radical SAM core domain profile. 181 414 IPR007197 GO:0003824|GO:0051536
Cma05g00005 447 PANTHER RADICAL SAM SUPERFAMILY PROTEIN 69 430 - -
Cma05g00005 447 Gene3D - 83 146 - -
Cma05g00005 447 Gene3D Aldolase class I 149 428 IPR013785 -
Cma05g00005 447 PANTHER 23S RRNA METHYLTRANSFERASE 69 430 IPR040072 -
Cma05g00005 447 CDD Radical_SAM 194 362 - -
Cma05g00005 447 Pfam 4Fe-4S single cluster domain 194 287 - -
Cma05g00005 447 TIGRFAM rRNA_mod_RlmN: 23S rRNA (adenine(2503)-C(2))-methyltransferase 82 423 IPR027492 GO:0030488|GO:0070475
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma05g00005 K06941 rlmN; 23S rRNA (adenine2503-C2)-methyltransferase [EC:2.1.1.192] - csv:101210124 708.368
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma05g00005 Cma-Chr5:22824 Cma19g00551 Cma-Chr19:6296797 2.42E-54 dispersed
       

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
Vvi1g724 . . Bda01g02224 . Bpe13g00495 . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cone8ag0658 . . . . . . . . . . . Bma01g00052 . . . . . Cma05g00005 . . . . . . . . . . . . . . . . . . . . . .
       

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
OG0011256 2 1 1 1 1 1 1 1 1 0 1 1 1 1 1 1 1 1 0 1 1 1 1 1 1 1 1 0 1 1 28
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cma05g00005 Cma_Chr05 FPKM 5.206186 4.396807 6.607953 7.342086 19.491306 20.087784 18.493147 14.043175 14.262895 18.14562