Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa01g00010 ATGGCTAGAGTTCTGGTTCAGTCGACAAATATTCCTGGTTTGGTCGGTGGGAGAAAGAATGGCCTTACAACAAGGGGGTCGGCAAATGTAAAACGGGCTGTTAAAATGATGTCCACCGCGCATTCACCTGGTTTGAGAATAAGAAATTTCTCTGGACTCAGAGGATTTAATTCTTTGGATAACATGTTGAGAAGTAGACAAAATTTTCATTCCAAGGTGGCCACTGCAATCTCTTCGAGGCGACGAAAGGCTAGCAGATGTGTTCCAAGGGCTATGTTTGAGCGGTTTACAGAAAAGGCAATTAAAGTCATCATGCTTGCCCAGGAGGAAGCGAGGCGGCTTGGTCACAATTTTGTTGGCACGGAGCAGATACTTTTAGGTCTTATTGGCGAAGGCACTGGCATCGCTGCTAAGGTTCTTAAATCCATGGGAATTAATCTTAAAGATGCGCGCGTGGAGGTGGAGAAGATAATTGGTAGGGGCAGTGGCTTCGTTGCTGTAGAAATTCCATTCACTCCTCGTGCAAAGCGTGTTTTGGAACTTTCTCTCGAGGAAGCTCGCCAACTAGGCCACAATTATATTGGGTCAGAGCACTTGCTTCTGGGACTACTCCGTGAAGGTGAGGGTGTTGCGGCTCGTGTTCTGGAAAACCTAGGTGCCGATCCTAGTAACATTCGCACTCAGGTTATTCGAATGGTTGGTGAGAGCACTGAGGCTGTTGGTGCTGGTGTTGGAGGAGGAAGCAGTGGGAACAAGATGCCAACCTTGGAAGAGTATGGCACAAATTTAACTAAGCTGGCTGAAGAGGGTAAATTAGATCCCGTTGTTGGAAGGCAGCAGCAAATAGAACGTGTAACCCAGATTTTGGGTCGGCGGACAAAAAATAATCCTTGCCTCATTGGTGAGCCTGGTGTTGGGAAAACTGCTATTGCAGAAGGTCTGGCGCAAAGGATTGCTAATGGGGATGTCCCTGAAACAATCGAAGGAAAGAAGGTTATAACCCTGGATATGGGGCTTCTCGTTGCTGGCACAAAATATCGTGGAGAATTTGAGGAAAGATTAAAGAAACTGATGGAGGAAATTAAACAAAGTGATGAGATTATCCTTTTTATTGATGAGGTGCACACATTAATTGGAGCAGGGGCTGCAGAAGGAGCCATTGATGCGGCAAACATATTGAAACCTGCTCTCGCAAGAGGTGAACTGCAGTGCATTGGAGCCACAACATTGGATGAATACAGGAAGCACATTGAGAAAGACCCAGCCTTAGAAAGGAGATTTCAGCCGGTCAAAGTGCCGGAGCCGTCTGTGGATGAAACCATACAGATTTTGAAAGGCCTTAGGGAACGCTATGAAATTCACCACAAACTTCGTTACACAGATGAAGCATTAGTAGCTGCTGCGCAGCTGTCATACCAGTACATCAGTGATCGTTTCTTGCCTGATAAGGCAATCGATTTAGTTGATGAAGCAGGTTCTCGAGTTCGCCTTCGTCATGCTCAACTACCTGAGGAAGCAAGGGAGCTTGAGAAAGAGCTGAGGCAGATCACAAAGGAGAAGAATGAGGCGGTTCGCAGTCAAGACTTTGAGAAGGCTGGGGAATTGCGTGATAGAGAAATGGAACTTAAGACTAAGATCTCTGCTCTAGTAGATAAGGGCAAGGAGATGAGCAAGGCTGAAAGCGAGGCAGGAGATGTAGGCCCTGTTGTGACTGAAGTTGATATTCAGCATATTGTTTCCTCCTGGACTGGCATTCCTGTTGAGAAAGTATCTACTGATGAATCTGATCGCCTCCTCAAAATGGAAGAGACCCTCCATAAGAGGGTTATTGGTCAAGATGAAGCAGTTCAAGCCATCAGTCGTGCCATACGCCGAGCTCGTGTTGGTTTGAAGAATCCCAATCGTCCAATTGCAAGCTTTATATTTTCTGGTCCAACTGGTGTTGGTAAATCTGAGTTAGCGAAAGCATTGGCTGCATACTATTTTGGGTCTGAAGAAGCAATGATTCGCCTTGATATGAGTGAATTTATGGAAAGGCATACAGTCTCCAAGCTCATTGGTTCCCCTCCTGGTTATGTTGGTTACACGGAAGGTGGTCAATTGACAGAGGCTGTTCGACGTCGTCCATACACAGTTGTGCTCTTTGATGAGATCGAGAAGGCTCATCCTGATGTATTCAACATGATGCTTCAAATTTTAGAGGATGGAAGGTTGACAGATAGCAAGGGCAGGACTGTAGACTTCAAAAATACACTTTTGATAATGACATCAAATGTGGGAAGCAGTGTTATAGAGAAGGGAGGTCGGAGAATGGGGTTCGACCTTGATTACGACGAGAAGGATAGTAGTTATAACCGAATCAAGAGCTTGGTGACAGAGGAACTGAAACAATACTTCAGGCCTGAGTTCTTGAATAGGTTGGATGAAATGATTGTCTTCCGTCAGCTCACAAAACTGGAAGTGAAGGAGATTGCGGATATAATGCTGAAGGAGGTGTTTGATAGGTTAAAAGCGAAAGAAATTGACCTTCAAGTGACAGAGAGATTTAGAGATAGGGTAGTGGAGGAAGGATATAACCCAAGCTACGGTGCGAGACCTTTGAGAAGGGCAATAATGAGACTTTTGGAGGACAGCATGGCAGAGAAGATGCTGGCAAGGGAGATCAAGGAGGGTGACTCGGTAATCGTGGATGTTGATTCGGATGGAAATGTTACAGTACTCAACGGCAGCAGTGGTGCTCCTGAATCCTTGCCGGATGCCATCCCTGTGTAA 2772 45.82 MARVLVQSTNIPGLVGGRKNGLTTRGSANVKRAVKMMSTAHSPGLRIRNFSGLRGFNSLDNMLRSRQNFHSKVATAISSRRRKASRCVPRAMFERFTEKAIKVIMLAQEEARRLGHNFVGTEQILLGLIGEGTGIAAKVLKSMGINLKDARVEVEKIIGRGSGFVAVEIPFTPRAKRVLELSLEEARQLGHNYIGSEHLLLGLLREGEGVAARVLENLGADPSNIRTQVIRMVGESTEAVGAGVGGGSSGNKMPTLEEYGTNLTKLAEEGKLDPVVGRQQQIERVTQILGRRTKNNPCLIGEPGVGKTAIAEGLAQRIANGDVPETIEGKKVITLDMGLLVAGTKYRGEFEERLKKLMEEIKQSDEIILFIDEVHTLIGAGAAEGAIDAANILKPALARGELQCIGATTLDEYRKHIEKDPALERRFQPVKVPEPSVDETIQILKGLRERYEIHHKLRYTDEALVAAAQLSYQYISDRFLPDKAIDLVDEAGSRVRLRHAQLPEEARELEKELRQITKEKNEAVRSQDFEKAGELRDREMELKTKISALVDKGKEMSKAESEAGDVGPVVTEVDIQHIVSSWTGIPVEKVSTDESDRLLKMEETLHKRVIGQDEAVQAISRAIRRARVGLKNPNRPIASFIFSGPTGVGKSELAKALAAYYFGSEEAMIRLDMSEFMERHTVSKLIGSPPGYVGYTEGGQLTEAVRRRPYTVVLFDEIEKAHPDVFNMMLQILEDGRLTDSKGRTVDFKNTLLIMTSNVGSSVIEKGGRRMGFDLDYDEKDSSYNRIKSLVTEELKQYFRPEFLNRLDEMIVFRQLTKLEVKEIADIMLKEVFDRLKAKEIDLQVTERFRDRVVEEGYNPSYGARPLRRAIMRLLEDSMAEKMLAREIKEGDSVIVDVDSDGNVTVLNGSSGAPESLPDAIPV* 924
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
1 80792 90944 + CsaV3_1G000100.1 Csa01g00010 514507

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa01g00010 923 Pfam C-terminal, D2-small domain, of ClpB protein 816 896 IPR019489 -
Csa01g00010 923 Coils Coil 499 526 - -
Csa01g00010 923 Gene3D - 816 912 - -
Csa01g00010 923 Gene3D - 246 436 IPR027417 -
Csa01g00010 923 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 585 902 IPR027417 -
Csa01g00010 923 Pfam ATPase family associated with various cellular activities (AAA) 298 414 IPR003959 GO:0005524|GO:0016887
Csa01g00010 923 SUPERFAMILY Double Clp-N motif 94 234 IPR036628 -
Csa01g00010 923 ProSitePatterns Chaperonins clpA/B signature 2. 670 688 IPR028299 -
Csa01g00010 923 SMART AAA_5 636 817 IPR003593 -
Csa01g00010 923 SMART AAA_5 293 433 IPR003593 -
Csa01g00010 923 PANTHER ATP-DEPENDENT CLP PROTEASE ATP-BINDING SUBUNIT CLPA HOMOLOG CD4B, CHLOROPLASTIC 76 923 - -
Csa01g00010 923 Gene3D - 92 240 IPR036628 -
Csa01g00010 923 SMART ClpB_D2_small_2 816 906 IPR019489 -
Csa01g00010 923 ProSitePatterns Chaperonins clpA/B signature 1. 388 400 IPR018368 GO:0005524
Csa01g00010 923 ProSiteProfiles Clp repeat (R) domain profile. 93 235 IPR004176 -
Csa01g00010 923 Pfam Clp amino terminal domain, pathogenicity island component 107 159 IPR004176 -
Csa01g00010 923 Pfam Clp amino terminal domain, pathogenicity island component 183 234 IPR004176 -
Csa01g00010 923 PRINTS ATP-dependent Clp protease ATP-binding subunit signature 640 658 IPR001270 GO:0005524
Csa01g00010 923 PRINTS ATP-dependent Clp protease ATP-binding subunit signature 685 703 IPR001270 GO:0005524
Csa01g00010 923 PRINTS ATP-dependent Clp protease ATP-binding subunit signature 714 732 IPR001270 GO:0005524
Csa01g00010 923 PRINTS ATP-dependent Clp protease ATP-binding subunit signature 747 761 IPR001270 GO:0005524
Csa01g00010 923 Coils Coil 347 367 - -
Csa01g00010 923 ProSiteProfiles UVR domain profile. 510 545 IPR001943 GO:0005515
Csa01g00010 923 Pfam AAA lid domain 436 537 IPR041546 -
Csa01g00010 923 Gene3D - 588 814 IPR027417 -
Csa01g00010 923 PANTHER ATP-DEPENDENT CLP PROTEASE 76 923 - -
Csa01g00010 923 Pfam AAA domain (Cdc48 subfamily) 635 809 IPR003959 GO:0005524|GO:0016887
Csa01g00010 923 Gene3D - 438 582 - -
Csa01g00010 923 CDD AAA 610 758 - -
Csa01g00010 923 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 253 535 IPR027417 -
Csa01g00010 923 Gene3D UVR domain 502 566 - -
Csa01g00010 923 CDD AAA 276 428 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa01g00010 K03696 clpC; ATP-dependent Clp protease ATP-binding subunit ClpC - csv:101207083 1730.69
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa01g00010 Csa-Chr1:80792 Csa04g02641 Csa-Chr4:25785108 0 dispersed
Csa01g02385 Csa-Chr1:21099244 Csa01g00010 Csa-Chr1:80792 0 transposed
Csa03g01636 Csa-Chr3:12229933 Csa01g00010 Csa-Chr1:80792 6.13E-11 transposed
Csa07g01037 Csa-Chr7:9739133 Csa01g00010 Csa-Chr1:80792 1.05E-144 transposed
Csa01g00010 Csa-Chr1:80792 Csa03g02465 Csa-Chr3:22957501 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
Vvi17g29 . . Bda06g00709 Bda15g00698 . . . . . . Cma10g00018 Cma11g00007 Car10g00013 Car11g00006 . . . . . . . . . . Cla06g01783 Cam06g1977 Cec06g2027 Cco06g2035 Clacu06g1934 Cmu06g1875 Cre06g2687 . . Cone13ag0256 Cone19ag0241 . . . . . Blo15g00190 . . Bpe07g00907 . . . . Cmo10g00016 Cmo11g00006 . . . . . Cpe18g00938 . . . . . . . . . . . . . . Lsi06g01681 Csa01g00010 Chy02g02703 Cme02g02111
       

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
OG0002235 2 2 2 1 2 2 3 2 2 2 2 2 4 2 2 4 2 2 4 2 2 1 2 2 2 2 1 2 2 1 63
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Csa01g00010 Csa_Chr01 FPKM 4.376185 4.143178 2.147781 2.645113 0.96108 1.133353 0.876495 0.946518 0.908086 0.883081