Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma03g01112 ATGGCCGATTCCACGACCAGTAGGAAGAAACCTCTCAGCTTGAACGATCGTCATTACCGACTCCTTCAGGATCTTTCTGCTCCACCCAAACCCTCTCTGGCAACCGCTCGTGGTCAGAGGGCAGGAGACGAAGATGAAAAGCCCTCGAGAATCGAACTTGAGAATCAACGTCGCCTCAATGAAGTATCGACTAATGTTGACGAACTTCATGATAATAGTATTCCGCAGTCTTCAGGTGTTAATGTGGACGAACAGCCGAGGAAGGTTAAGATTGGTGGCCGACGCCGTCTGTGCAAACTTTCGTCCCGAGAAGATGGTTATGTGGATAATCCAGTGGGGTTTGATTTCAATGAACCCAATTTTTCTGGTATTACAGATTTTGATTCTCCTTCTCCACCACCTCCACCGCCCTTGGATCATCGCGATAACAAGGGAAGTGATATCAGGGATATTCTGAATGACTTGAGCACGAAGCTTGAGCTTTTGTCTGTCGAGAAGAAGCGTGAAAAACCAAGAAAATTTGATTCTCTTGAAAACTTATCTGCTTCTTATTGTGGAAAAGGGACCGAGGAAGCAAGTGAAGCCGATGAACGTGAGGTTGATAGTCTGAAGTTCTCCACCAACCCATCTAATTCCTTGTTAGGTGAAAATGCAAAAGTTGAGAATGTTGTTAAGACTCTGAACGACGGTTTGAGTGGTGAGTATGGAGTAGAAATTCCCCCAAATAAGGTGAAGGTCGATGTGTTTTACAAGGGAACTCATGAAGTTGATACGTGCAGTACAGGGAGTGAACAACTTCTAAATCTAGAATATGGAAACAATAAACATCACGAAGGACGAGATAAATACATGCATCAGGATGTCCAAAGGTCGTATAATTCCCTAGGAAAAACTCCTGCGTTGATAGACGAAGGAGAGGTAGGCCTGGAGGATGATTGCGTAGTTCTGAATCGTGAAACAAGGAATTTTAATGAAGTGAGAAGGCAACATGACAAATATGAAAAGAAGAGTGATGATTCTGATGGGATTGACATGTTTGATAAATCTGCTGAGGATTTTATATTGGAGGGAAAAAGCTCCACTGGTCACAAGTCTGCTTTCAAATTGCAAGGTAGAATTGCAAAGATGCTGTATCCACATCAGCGTGAAGGGTTGCGTTGGCTGTGGTCTCTACATTGTCGGGGTAAGGGTGGAATCTTAGGGGATGACATGGGTTTAGGGAAAACAATGCAGATTTGTGGCTTTCTAGCTGGACTTTTTTATTCGCGTTTAATAAAGAGGGTCTTGGTTGTGGCTCCTAAAACTCTCCTGCCCCATTGGATTAAGGAGTTAGCTGTTGTGGGTCTTTCTGAGAAGACGAGAGAATACTATGGGACGTCGGCTAAACTTCGACAGTATGAGCTTAATTATATTCTCCAGGATAAAGGTGTTCTTCTGACGACTTATGATATTGTAAGGAATAATTCAAAGTCTTTACAAGGAAACAGCTTCTTTGATGATGAAGAAACTGAGGATGGAACAACATGGGATTATATGATCCTTGATGAGGGTCATCTAATAAAGAATCCTAGCACTCAAAGAGCCAAAAGTTTGCTTGAAATTCCTAGTGCTCATCGCATAATTATAAGTGGCACACCATTGCAAAACAATTTGAAGGAACTGTGGGCCCTGTTTAATTTTTGCTGTCCTGACCTATTGGGTGACAAGAAATGGTTTAAAGAGTACTATGAGTGTGCAATTCTTCGTGGAAATGACAAAAAGGCTTCTGAAAGAGATAAGCGTGTTGGTTCAATGGCTGCAAAGGAGTTACGGGAACGTATCCAACCCTACTTTTTGCGTCGTATGAAGAGTGAAGTGTTTAACGAGGATAATGATCAAGCTGCTGCCAAACTCTCTAAAAAGAATGACATTATTGTTTGGCTTAAATTGACTAGTTGTCAGCGAAAACTTTATGAAGCTTTTTTGAAGAGTGAATTGGTACTTTCAGCATTTGATGGCTCACCATTGGCTGCCCTTACGATTCTTAAGAAAATATGCGATCATCCACTTCTTTTGACGAAAAGAGCAGCTGAAGATCTATTGGAAGGAATGGAAACTGTGCTAAGTCCAGAAGATGCTGGTGTAGCAGAGAAGCTGGCAATGCATTTAGCAAATGTGGCTGATAGGGATGATTATGAAGTGTATAATGACAATGTCTCTTGCAAAATATCCTTCATAATGTCTTTATTGGATAATTTGATCCCGAAGGGGCATAATGTTCTAATCTTCTCTCAAACTCGCAAGATGCTCAATCTTATTGAGGAATCACTATTAGCCAATGATTACGAGTTCTTGCGCATTGACGGTACTACAAAAGCCACCGACAGAGTAAAGATTGTAAATGATTTTCAAGAAGGTAGAGGACCTTCGATTTTTCTCTTGACATCTCAAGTTGGTGGTTTAGGTCTTACACTTACCAGAGCAGATCGTGTAATTGTAGTAGATCCTGCCTGGAATCCAAGTACTGATAACCAAAGTGTTGATCGGGCATACCGAATTGGACAAAAGAAAGATGTTATAGTGTACAGATTAATGACTTGTGGGACTGTTGAAGAAAAGATCTACAGGAAACAGATTTATAAAGGGGGGCTGTTTAAAACCGCAACAGAGCACAAAGAACAGATTCGGTACTTTAGTCAACAGGATCTTCGGGAGCTTTTTAGCCTTCCAAAAGACGGGTTCGATATATCTGTCACACAACAACAATTGCATGAGGAACATGATCGACAAATTACAATGGACGATTCTTTGAAATGTCACATAAAGTTCCTGGAAACACAAGGTATTGCAGGAGTTAGTCACCACAATTTGCTCTTCTCCAAGACAGCTCCAGAACCTGTGCACGTATTGGAGGAAGAAGAGGCATCTTTCAGGAGGAATAAGGAGTTTTCTTTTGGTGAAAGAGCAACTTCAAGTTCTTCAATCGATCCTGATACAGATGGGTATGAGTTCATACGTTACACTTATCAGTTACCGAAGAATTACATTGACACAGGGTGTGATAACATCCTTTACGTTGCTTCCAGGGCAAGGTTTGCTTTTAACCCAAAGGATGTGAAGTTGAATAGATTTGCTACAAATGCAAGCAGTCCAAGCAAGCCGACTGAAAGGGAAATCAAAGAGAGAATCAATCGGCTGTCCCAAACTCTAGAAAATAAGGTCCTTATCTCAAGATTACCAGACAGGGGAGAAAGAATTCAGAAGCAAATTGTTGAACTGAATTTACAGCTTTCTGAATTGAAGAGAAAAGAACATGAAAGTGAAGTCATCGACATCACCGACGAGTTTCAGAAGGTGCTGAATAACCAAATGGCCACTGCGAACCGAGAGAATTGGAGTAATTTCGAGTGGAACCGAAAACTTACAGAAAGGGAGAGAAATCAAGAACTGTTTGTGTGA 3438 41.33 MADSTTSRKKPLSLNDRHYRLLQDLSAPPKPSLATARGQRAGDEDEKPSRIELENQRRLNEVSTNVDELHDNSIPQSSGVNVDEQPRKVKIGGRRRLCKLSSREDGYVDNPVGFDFNEPNFSGITDFDSPSPPPPPPLDHRDNKGSDIRDILNDLSTKLELLSVEKKREKPRKFDSLENLSASYCGKGTEEASEADEREVDSLKFSTNPSNSLLGENAKVENVVKTLNDGLSGEYGVEIPPNKVKVDVFYKGTHEVDTCSTGSEQLLNLEYGNNKHHEGRDKYMHQDVQRSYNSLGKTPALIDEGEVGLEDDCVVLNRETRNFNEVRRQHDKYEKKSDDSDGIDMFDKSAEDFILEGKSSTGHKSAFKLQGRIAKMLYPHQREGLRWLWSLHCRGKGGILGDDMGLGKTMQICGFLAGLFYSRLIKRVLVVAPKTLLPHWIKELAVVGLSEKTREYYGTSAKLRQYELNYILQDKGVLLTTYDIVRNNSKSLQGNSFFDDEETEDGTTWDYMILDEGHLIKNPSTQRAKSLLEIPSAHRIIISGTPLQNNLKELWALFNFCCPDLLGDKKWFKEYYECAILRGNDKKASERDKRVGSMAAKELRERIQPYFLRRMKSEVFNEDNDQAAAKLSKKNDIIVWLKLTSCQRKLYEAFLKSELVLSAFDGSPLAALTILKKICDHPLLLTKRAAEDLLEGMETVLSPEDAGVAEKLAMHLANVADRDDYEVYNDNVSCKISFIMSLLDNLIPKGHNVLIFSQTRKMLNLIEESLLANDYEFLRIDGTTKATDRVKIVNDFQEGRGPSIFLLTSQVGGLGLTLTRADRVIVVDPAWNPSTDNQSVDRAYRIGQKKDVIVYRLMTCGTVEEKIYRKQIYKGGLFKTATEHKEQIRYFSQQDLRELFSLPKDGFDISVTQQQLHEEHDRQITMDDSLKCHIKFLETQGIAGVSHHNLLFSKTAPEPVHVLEEEEASFRRNKEFSFGERATSSSSIDPDTDGYEFIRYTYQLPKNYIDTGCDNILYVASRARFAFNPKDVKLNRFATNASSPSKPTEREIKERINRLSQTLENKVLISRLPDRGERIQKQIVELNLQLSELKRKEHESEVIDITDEFQKVLNNQMATANRENWSNFEWNRKLTERERNQELFV 1145
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
3 7588871 7601746 - CmaCh03G011120.1 Cma03g01112 290683

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma03g01112 1145 SMART helicmild6 764 847 IPR001650 -
Cma03g01112 1145 MobiDBLite consensus disorder prediction 66 83 - -
Cma03g01112 1145 MobiDBLite consensus disorder prediction 39 65 - -
Cma03g01112 1145 ProSiteProfiles Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. 389 564 IPR014001 -
Cma03g01112 1145 SMART ultradead3 372 575 IPR014001 -
Cma03g01112 1145 Pfam SNF2-related domain 380 684 IPR000330 GO:0005524|GO:0140658
Cma03g01112 1145 ProSiteProfiles Superfamilies 1 and 2 helicase C-terminal domain profile. 738 897 IPR001650 -
Cma03g01112 1145 PANTHER SNF2/RAD54 FAMILY MEMBER 334 972 - -
Cma03g01112 1145 Gene3D - 636 933 IPR027417 -
Cma03g01112 1145 Pfam Helicase conserved C-terminal domain 735 847 IPR001650 -
Cma03g01112 1145 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 359 614 IPR027417 -
Cma03g01112 1145 MobiDBLite consensus disorder prediction 119 148 - -
Cma03g01112 1145 MobiDBLite consensus disorder prediction 22 88 - -
Cma03g01112 1145 PANTHER OS04G0692700 PROTEIN 334 972 - -
Cma03g01112 1145 CDD SF2_C_SNF 732 858 - -
Cma03g01112 1145 Gene3D - 355 635 IPR038718 -
Cma03g01112 1145 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 628 922 IPR027417 -
Cma03g01112 1145 Coils Coil 1076 1096 - -
Cma03g01112 1145 Coils Coil 316 336 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma03g01112 K20093 ERCC6L, PICH; DNA excision repair protein ERCC-6-like [EC:5.6.2.-] - csv:101213923 1786.93
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma03g01112 Cma-Chr3:7588871 Cma19g00099 Cma-Chr19:602390 4.01E-103 dispersed
Cma04g00490 Cma-Chr4:2500951 Cma03g01112 Cma-Chr3:7588871 1.41E-59 dispersed
Cma12g00974 Cma-Chr12:7651695 Cma03g01112 Cma-Chr3:7588871 8.04E-54 dispersed
Cma03g01112 Cma-Chr3:7588871 Cma02g01737 Cma-Chr2:9751162 1.59E-103 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
Vvi4g1332 Blo04g00920 . . . . . Bma09g00432 . . . Cma03g01112 . Car03g01005 . . . Cpe10g00321 . . . . . . . Cla01g01488 Cam01g1555 Cec04g1201 Cco04g1269 Clacu01g1581 Cmu01g1470 Cre04g1151 . . . . Lsi01g01173 . . Cme08g01140 Blo05g00528 . . Bda14g01013 . . . . . Cmo03g01102 . . . . . . . . . . . . . . . . . . . . . . Csa06g02737 . .
       

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
OG0012490 0 1 1 2 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 0 1 1 1 1 1 1 29
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
34688 PF00176 SNF2_N 1.00E-46 CL0023 Cma TR
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cma03g01112 Cma_Chr03 FPKM 5.220807 5.637759 4.475759 5.212447 10.199869 9.067845 10.098988 5.757731 5.33842 5.755255