Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma04g00618 ATGCAGGCTGCGAGTGGTGCTGCAGTGATGGGCTCTCTGCAAGTTGTCGTTTGTGCGAAGGGATCGTCTTTTCCTTCGAAAGGGTCTAGCATTTGTGTGTTTCCGCAGCACAAGAAATGGATCGTCTTAAAGCCCTGCAAATCCTCTAGTGTTGAAGCAAACATGGTTGCGGGGAAGGCATCATCTTCTGTATCTGTCTCTTCTCCACAACTTGGAGGTGGAAGTGGTTTTGTAGACCACGGCTTGAGTGAAGCAGATCCCGATGTTCGAAGCATTATCGATAAAGAAAAGCAGCGACAGTTTAAAAGCCTTGAACTCATTGCATCTGAGAATTTTACATCTAGGGCAGTTATGGAGGCAGTGGGGTCCTGCCTCACAAACAAGTACTCAGAAGGATTGCCTGGAAAAAGGTACTATGGTGGCAATGAACATATTGATGAGCTTGAAACACTCTGTCAACAAAGGGCTCTAGCAGCATTTCGTTTGGACAAGAACAAGTGGGGTGTAAATGTTCAACCATTATCTGGATCACCTGCTAACTTCGAAGTTTATACTGCAATTCTTAATCCACACGATCGAATCATGGGTTTGGACTTGCCTCATGGAGGACATTTGTCTCATGGGTTTATGACACCAAAGAGGCGGGTGTCAGGCACATCAATTTATTTTGAATCTATGCCTTATCGTCTTGACGAGACTACAGGCATTGTAGATTATGACATGCTCGAAAAAACTGCCAACTTATTTCGACCAAAGCTGATTATTGCTGGTGCAAGTGCTTATCCACGTGATTTTGATTATCCTCGCATGAGAAAAATTGCCGATGCTGTTGGTGCTTTTCTCATGATGGATATGGCTCACATTAGTGGGCTTGTTGCTGCTTCGGTGGTTGCTGATCCTTTTGAATTCTGTGATATTGTGACCACAACAACACACAAGTCTCTGAGAGGTCCTAGAGGTGGCATGATTTTCTTCAGAAAGGATCCTGTCCTGGGAGTTGACTTAGAATCTGCAATTAATAATGCTGTGTTCCCAGGATTGCAGGGTGGTCCTCATAATCATACAATTGGGGGGCTTGCCGTCTGCTTGAAGCATGCTCAATCCCCGGAATTTAAGGACTATCAGAACAAGGTCGTCTCCAATTGCAGAGCTCTTGCTAGTCGACTGGTCGAGTTAGGTTATAAGCTAGTTTCTGGTGGAAGTGACAATCACCTGGTTCTTGTAGATCTAAGGCCATTGGGCATCGATGGGGCACGGGTGGAAAAGATTCTCGACATGGCCTCAATCACTCTCAACAAGAACTCAGTACCAGGTGACAAGAGTGCTCTAGTTCCAGGAGGCATCCGAATCGGATCGCCTGCCATGACCACCCGAGGATTCACTGAGAAGGAATTCATTGCAGTTGCAGACTTCATACATGAGGGCGTTAAGATAACTCTCAATGCCAAACCACTGGCCCCAGGATCAAAGCTTCAAGAGTTCCTTAAGTTCGTGACAACCTCTGATTTCCCCTTGATCGACCGAGTTTCGGATCTTCGATCAAGAGTTGAAGCTCTTACAACTCAATTCCCAATTCCTGGCTTTAATAAAAATGGAAAAGACCAAGCAGTCTGTAACATCTTAGAAGCTGCTTTTCTCGGCTTCTTTGTCTGCTTCTGTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTGCTGCTGCTGCTTCTGCTTGTTTTGGTGTTTTTTGGTTGTATGGTTCGTCCCTTTCCGCGATTATTCGAGGTTGTTTGATTCTTTCTTATGCCATGGAACAACTTGATGCCAAGGATTTGAAGGGCTCTACGGAGAATTCCTCGGCTAATTCACTCTTTGATGCTTCACGATATGAGTTTTTTGGTCAAAATGTCGTGGGAGAAGTGGAGCTGGGAGGTTTAGAAGAAGACGAAGATGTTCCTTTATTTGGGTCTACAGATGAAGAGTATCGTTTGTTTGTTCAGGAAGAGGGTACAGGGTTGGGATCTTTATCGGAAATGGATGATTTGGCAAACACTTTTGCAAAGCTGAACAAAGTTGTTACTGGACCAAGACACCCTGGAGTTATCGGAGACCGAGGATCTGGTTCTTTTTCTCGGGAAAGTTCTTCTGCAACTGATTGGGCACAAGATGGAGAGTTTTGTAATTGGATAGAGCAGCATGTATTTGATTCAGAATGTGCTCAGGAGGAGAAGAGATGGTCATCTCAACCTCAATCTTCTATTCGTCTTCCTGAACCAAAACCTTTGTATAGAACGTCCTCTTATCCTCAGCAGCAGCCTACACAACACCACTTTTCTAGTGAACCAATTTTAGTACCAAAATCTTCTTTCACATCATTCCCTCCTCCAGGAAGTAGGTCTCAACATGGTTCACCTCGTCACCTAAATGTTACATCCCTTCCTGATGGAAGTCAGTTACCCTTCTCTGCACCAAACATCGCCTCTTTATCCAAGTCTAATATGCAGTTAGCTGGGATGCCGCATGGCTTGCATTATGGAGGCAACATGCACCAGTTCACCACTCCCGGCCTTTCTTTTAGTAGCAGGCCACAAAATCAGTGGATTAACAACGCTGGTCTATTACATGGGGATCACTCAAATCTCTTGAACAGTATATTACAACAGCAACTATCTCATCAAAATGGCATCCTATCCTCTCAGTTATTGTCAGCTCATCAGCAGCTGCAACAGCACAGGCTACATCATCCAGTACAACCATCTTTGGCGCATTTTGCAGCTCTTCAGTCTCAGCTCTATAATGCCCATTCACCATCTTCCCATAGAGCAATCCTTGGATTGACTGATGTGAGAGATCAGAAACCTAAATCGCAGAGAGGGAAACATAACATGCGTTCTTCTCAGCAAGGTTCTGAAACTGGTAGTCAAAAGAGTGATAGTGGATCCTTCCAGTTCAGATCTAAGCATATGACAGCTGATGAGATAGAAAGTATTCTGAAGATGCAGCATGCTGCCACCCACAGCAATGATCCTTACATAGATGACTATTATCACCAGGCTCGTGTTGCCAAAAAAGCTGCTGGGTCAAGATCAAAGAATGCATTTTGTCCATCCCGACTAAGAGAGCTTCCATCTCGATCTCGAAGTGGTTCAGATCAACATTCTCATTCCACACCTGATTCATTGGGAAAAATACCTTTAGCTTCTATCCGTAGACCTCGCCCTCTGCTTGAAGTTGATCCTCCATCCTCAGGTTTGTGTGACGGTAGCTCTGAACAGACGATATCCGAAAGGCCTCTTGAGCAAGAACCAATGCTTGCTGCTAGAATCACCATTGAAGATGGTCTCTGTCTTCTTCTTGATATAGACGATATTGATCGGCTTTTACAACATAATAAACCACAAGATGGAGGAGTCCAGCTCAGACGAAGGCGACAGATGCTGCTGGAAGGTATGGCAGCGTCACTTCAGCTTGTTGACCCCCTTGGAAAAAGTAGCCATGGTGTTGGCCCGTCTCCAAAGGATGACATTGTGTTCTTGCGTTTGGCCTCTCTTCCCAAAGGTCGAAAGCTTCTTTCTAAATTCCTCAAGCTGATTTTCCCTGGTAGCGAGCTTGCACGAATTGTCTGTATGGCTATTTTTCGTCACTTGAGGTTCTTGTTTGGTGGACTTCCATCTGATCCTGGAGCAGCTGAGACAACATCTAATCTCTCAAAGACCGTTTCTGCTTGTGTTAACGGTATGGACCTTCGTGCATTAAGTGCTTGTCTTGTTGCTGTTGTCTGCTCATCAGAGCAGCCACCACTACGCCCCCTTGGAAGTTCTGCTGGAGATGGAGCCTCTATTGTTCTGAAGTCCATTCTTGAAAGGGCTACAGAATTATTAACTGATCCTCATGTTGCTAGTAACTGTAGCATGCCCAATCGAGCGCTATGGCAGGCTTCCTTTGATGAATTCTTCCATCTCCTTACCAAGTACTGTGTGAGTAAATACGAGACTATAGTGCAGTCATTATTTTTGCAGACACCATCGACCACTGATGTTATAGGGTCAGAGGCAGCCAGAGCCATCAGCCGTGAAATGCCTGTGGAGCTTCTTAGGGCTAGCCTTCCCCACACCAATGAACCACAAAGGAAGCTTTTAATGGATTTTGCCCAGCGTTCCATGCCAGTTTCAGAATTCAGTGCCCATGGTGGAAGTAGTGGACAAATGAATTCAGAATCAGTTAGGGGTTAG 4206 45.03 MQAASGAAVMGSLQVVVCAKGSSFPSKGSSICVFPQHKKWIVLKPCKSSSVEANMVAGKASSSVSVSSPQLGGGSGFVDHGLSEADPDVRSIIDKEKQRQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYGGNEHIDELETLCQQRALAAFRLDKNKWGVNVQPLSGSPANFEVYTAILNPHDRIMGLDLPHGGHLSHGFMTPKRRVSGTSIYFESMPYRLDETTGIVDYDMLEKTANLFRPKLIIAGASAYPRDFDYPRMRKIADAVGAFLMMDMAHISGLVAASVVADPFEFCDIVTTTTHKSLRGPRGGMIFFRKDPVLGVDLESAINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKDYQNKVVSNCRALASRLVELGYKLVSGGSDNHLVLVDLRPLGIDGARVEKILDMASITLNKNSVPGDKSALVPGGIRIGSPAMTTRGFTEKEFIAVADFIHEGVKITLNAKPLAPGSKLQEFLKFVTTSDFPLIDRVSDLRSRVEALTTQFPIPGFNKNGKDQAVCNILEAAFLGFFVCFCSSSSSSSSSSAAAASACFGVFWLYGSSLSAIIRGCLILSYAMEQLDAKDLKGSTENSSANSLFDASRYEFFGQNVVGEVELGGLEEDEDVPLFGSTDEEYRLFVQEEGTGLGSLSEMDDLANTFAKLNKVVTGPRHPGVIGDRGSGSFSRESSSATDWAQDGEFCNWIEQHVFDSECAQEEKRWSSQPQSSIRLPEPKPLYRTSSYPQQQPTQHHFSSEPILVPKSSFTSFPPPGSRSQHGSPRHLNVTSLPDGSQLPFSAPNIASLSKSNMQLAGMPHGLHYGGNMHQFTTPGLSFSSRPQNQWINNAGLLHGDHSNLLNSILQQQLSHQNGILSSQLLSAHQQLQQHRLHHPVQPSLAHFAALQSQLYNAHSPSSHRAILGLTDVRDQKPKSQRGKHNMRSSQQGSETGSQKSDSGSFQFRSKHMTADEIESILKMQHAATHSNDPYIDDYYHQARVAKKAAGSRSKNAFCPSRLRELPSRSRSGSDQHSHSTPDSLGKIPLASIRRPRPLLEVDPPSSGLCDGSSEQTISERPLEQEPMLAARITIEDGLCLLLDIDDIDRLLQHNKPQDGGVQLRRRRQMLLEGMAASLQLVDPLGKSSHGVGPSPKDDIVFLRLASLPKGRKLLSKFLKLIFPGSELARIVCMAIFRHLRFLFGGLPSDPGAAETTSNLSKTVSACVNGMDLRALSACLVAVVCSSEQPPLRPLGSSAGDGASIVLKSILERATELLTDPHVASNCSMPNRALWQASFDEFFHLLTKYCVSKYETIVQSLFLQTPSTTDVIGSEAARAISREMPVELLRASLPHTNEPQRKLLMDFAQRSMPVSEFSAHGGSSGQMNSESVRG 1401
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 3155567 3170249 + CmaCh04G006180.1 Cma04g00618 291699

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma04g00618 1401 MobiDBLite consensus disorder prediction 755 810 - -
Cma04g00618 1401 CDD SHMT 84 486 IPR001085 GO:0004372|GO:0019264|GO:0030170|GO:0035999
Cma04g00618 1401 Pfam Serine hydroxymethyltransferase 82 472 IPR039429 -
Cma04g00618 1401 ProSitePatterns Serine hydroxymethyltransferase pyridoxal-phosphate attachment site. 305 321 IPR019798 GO:0030170
Cma04g00618 1401 MobiDBLite consensus disorder prediction 952 974 - -
Cma04g00618 1401 MobiDBLite consensus disorder prediction 1383 1401 - -
Cma04g00618 1401 MobiDBLite consensus disorder prediction 732 810 - -
Cma04g00618 1401 PANTHER TOPOISOMERASE II-ASSOCIATED PROTEIN PAT1 597 1399 IPR039900 GO:0000290
Cma04g00618 1401 MobiDBLite consensus disorder prediction 1382 1401 - -
Cma04g00618 1401 MobiDBLite consensus disorder prediction 688 708 - -
Cma04g00618 1401 Gene3D Aspartate Aminotransferase, domain 1 86 526 IPR015422 GO:0003824
Cma04g00618 1401 SUPERFAMILY PLP-dependent transferases 80 528 IPR015424 -
Cma04g00618 1401 Hamap Serine hydroxymethyltransferase [glyA]. 81 527 IPR001085 GO:0004372|GO:0019264|GO:0030170|GO:0035999
Cma04g00618 1401 Gene3D - 111 376 IPR015421 GO:0003824
Cma04g00618 1401 PANTHER LOW QUALITY PROTEIN: PROTEIN PAT1 HOMOLOG 1-LIKE 597 1399 - -
Cma04g00618 1401 MobiDBLite consensus disorder prediction 1017 1088 - -
Cma04g00618 1401 MobiDBLite consensus disorder prediction 939 974 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma04g00618 K12617 PATL1, PAT1; DNA topoisomerase 2-associated protein PAT1 - csv:101213130 1448.34
       

WGDs- Genes

Select Gene_1 Gene_2 Event_name
Cma04g00618 Cma09g00740 CCT
Cma01g01303 Cma04g00618 CCT
Cma04g00618 Cma16g00483 CST
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma01g01303 Cma-Chr1:9315054 Cma04g00618 Cma-Chr4:3155567 0 dispersed
Cma04g00618 Cma-Chr4:3155567 Cma09g00740 Cma-Chr9:3534014 0 dispersed
Cma16g00484 Cma-Chr16:2459601 Cma04g00618 Cma-Chr4:3155567 0 transposed
Cma16g00483 Cma-Chr16:2448627 Cma04g00618 Cma-Chr4:3155567 0 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
Vvi19g989 . . . . . . . . Cmo16g00524 Cmo04g00665 Cma01g01303 Cma09g00740 Car01g01110 Car09g00650 . . Cpe02g00629 . . . . . . . Cla11g01597 Cam11g1663 Cec11g1692 Cco11g1688 Clacu11g1821 Cmu11g1633 Cre11g2049 . . . . Lsi04g01874 . . Cme07g00754 . . . . . . . . . Cmo01g01358 Cmo09g00732 Cma04g00618 Cma16g00483 Car04g00578 Car16g00439 Cpe14g00410 Cpe01g00557 . . . . . . . Cla07g01031 Cam07g1474 Cec07g1183 Cco07g1160 Clacu07g1085 Cmu07g1073 Cre07g1449 . . Chy07g01071 .
       

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
OG0001208 3 3 3 3 4 1 4 1 1 2 2 2 4 2 2 4 2 4 4 2 2 2 2 2 1 2 2 4 2 1 73
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cma04g00618 Cma_Chr04 FPKM 28.794508 30.668346 37.204041 35.955364 21.657564 22.083384 21.993917 39.798103 39.311546 39.751568