Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi05g01236 ATGGGCAAACAGAAGCAACAAGTGATTTCTCGATTCTTTGCTCCAAAACCCAAGTCCCCATCTCTTTCTTCTTCTTCTTCCTCCGCCTCCGCCTCCGCCGCCTTAACTCCGCCGACCCAACCGTTTTCACCTCCTAAGATATCAGCCACCGTCACTTTCTCCCCTTCCAAACGCCTCATTTCTTCTGCACTCGCCTCTCAGTTAACACCACCCAAATCCTCTAAACGCCCAAAACTCTCCCCTCATACCCAAAACCCTCTACCTTCCGTCCCAAGTCCCTCACTTCACAAAAGATTCCTCGACAAGTTCCTTGAGCCCACGGATGACTCTTTCGAACCTTCTAATCAAAATCCCAGAACCTCAAAGGGCGCTGATTCCAAATACACCCCTTTGGAGCTACAAGTTGAGGACCTTAAGAAGAGGTACCCTGATGTTCTTCTCATGGTGGAGGTTGGTTACAGGTATAGATTTTTTGGCCAAGATGCTGAAATAGCGGCTCGTGTTTTGGGTATTTATGCTCATTTGGATCATAATTTTATGACTGCGAGTATACCCACGTTTAGATTGAATGTGCATGTGAGGAGGCTGGTTAGTGCAGGGTATAAGGTAGGTGTTGTTAAGCAAACCGAAACCGCTGCGATTAAGGCTCATGGGTCGAATAAGTTAGGCCCCTTTTGCAGGGGATTATCGGCTTTGTATACTAAAGCAACATTGGAGGCAGCCCAGAATTTAGGGGGAGCTGAAGAGGGATGTGGTGGAGAGAGTAATTACTTGTTCTGCGTGGTTGAAAATAGTATGTTAGTGGATAATTTGGACTTTAGGATCGAAAATGGGGTTGATGTGAAAATTGGGATGGTTGCCATGGAGATATCAACTGGGGATGTTATTTATGGGGAATATGATGATAATTTTATGAGAAGTGGGCTTGAGGCAATGCTCTTGAGCTTGTCTCCTGCTGAGTTACTTCTTGGGGATCCCATATCAAAGCCAACAGAGAAGTTGGAAGCCTTTCTTTTTACTGCAACATTGAACTTCGTTGCGTGCTGTATTGATTGTGTAGGTTGTATGCCTCTTGATTGTGTGGTAAGGCCTAGGAATAGCATTATGGGGTGCGTGTGGATGGAGGAAGGCAGTGGATATTTTCCAGGAAAATATTGGGTGTGTGGTTGGCTTAGCCCTAATCAGATGCTATTTCAAGAACTTTTCCAGGGAGAGGAGCGTGACTCAGGAGCTGGGGATCACTTGAACATGGGGTTATTACTAGGTTATGCTGGACCTGCTTCAAATGTCCGTGTGGAGCATGTTTCACGAGATTGCTTTAAAGATGGCAGTGCACTTGCTGAAGTGATGTCTTTATATGAAAACATTGACCAAGATAACTTAGCTGAACAGAACAACCCTGAAACAGTGTTGGTTGGACAAAAAAGTGATCGCACAGCAATTAAGGAAATAGTGAACATGCCAAATTTAGCTCTTCAAGCATTGGCCTTAACCATTCGTCACTTAAGGCAATTTGGTTTAGAAAGGATTGTGTCTTTGGGATCTTCTTTTAGGCCATTCTCATGCAAAATGGAGATGACCCTCTCAGGCAATACACTTACACAACTCGAGGTTTTGAAGAATAATGATGACGGTTCTCAAACTGGATCTTTATTACAGTGCATGAATCATACTCTTACAATATTTGGTTCAAGGCTTCTTCGCCAATGGATAACACATCCTTTATGTGATAGAGACATGATAATTGCTCGTCAAGAGGCCGTTTCCGAGATTGCTGCATCTATGGTATCTTCAAAAGTATCTCAAAATAACAGAGTGTTGGATGAAGAAGATTCTGATGTAATGGTCATTGAACCAGAATTGAATTATATACTTTCTTCGGTGTTGACAACCTTGGGAAGGGCACCAGATATTCAGCGTGGAATAACAAGAATCTTTCACAGAACAGCAGCCCCATCAGAGGTACTAAGAGTTACTTTTATCTTTGTAGTGTTAGGATTCATTGCAGTTATTCAAGCTATTTTATTTGCGGGAAAACAGCTTCAGCAGTTTCACATTGATGAAGAGGATGACAATTATTCCAGTGACAGTTTGATTGCCTCCAAGCTCCTAAGAAAGCTGATTTTATCTGCTTCTTCCTCTGGTTTAATAAACATTGCTGCAAAGCTTTTGTCAATGATCAGCAAAGAAGCTGCAGATCAAGGGGACTTTCCTAACCTAATGATCATCTATGGTGACCAATTTCCAAAGGTTGCTAGAGCTCGGAAGGAGGCTCAATCTGCAAGAGAGAAATTGGATTCTCTGATCACCTTATACCGCAAGCACCTTGGAATGCGGAGGTTGGAGTTCACTATTGTGTCTGGAACTACGCATTTGATTGAGTTAGCCTTAGATGTAAAGGTGCCTTCAAATTGGGTTAAGGTCAATAGTACCAAGAAAACCGTAAGGTATCGCCCACCTGAAGTATTGGCTGCGTTAGACGAGCTATCGCTGGCAAATGAGGAGCTCATGGTGGCATCTCGTGATGCTTGGGATGGCTTTCTAAGTGGATTCAGCAGATATTATGCAGAGTTCCAAGCTGCTGTTCAAGCACTGGCTTCCATCGACTGTCTGTATTCATTAGCAATTCTGTCAAGAAATAAGGTAACATTTTATAACTATGCTCGCCCAGAGTTTGTACATGATGATGAACCTGCTCAGATATTTATATGCTCTGGACGCCATCCGGTTTTGGAAGGTACATTACAAGGCAATTTTGTCCCGAACAACACAAATTTGGACGTGAATGGAGAGCATTGTCAAATTGTAACAGGACCGAACATGGGGGGGAAAAGTTGCTACATTCGACAAGTTGCTCTCATTGCTCTAATGGCTCAGGTCGGTTCCTTTGTACCGGCACTCTCTGCGAAACTTCATGTCCTGGATGGTATATACACTCGAATGGGTGCTTCTGACAGTATTCAACAAGGTAGAAGCACCTTCTTAGAAGAAATGACTGAGACTTCACATATACTCCATCACTCCACATCGCGTTCCTTGGTCATAATTGACGAACTTGGGAGAGGTACAAGCACTCACGATGGTGTGGCAATTGCATATGCAGCTTTGCATAATCTTCTCCAGCAGAAGAAATGTTTGGTCCTCTTTGTCACCCACTATCCTAAAGTTGCTGAGATTGCAAAGGAATTCCCAGCATCTGCGGGGGTATACCATGTTTCATATCTTACTTCACACAAAAATCCAAGCTTGCCAGGACCGAAATCAACTGATGAGGATGTGACTTACCTATATAAGCTCGTTCCTGGTGTTGCGGAGAGTAGTTTTGGTTTCAAGGTTGCCCAACTTGCACAGATACCATTATCGTGTATTGCACGGGCCACAGAAATGGGGGTCTGGTTAGAAGAAATAGTAACCAGAAGAGCACAGCGTAAATCGACAGAACAGCATTTGCAAGAAGCATCAGCCAAGGGGTTGGAATGGGAAAGCTTCCAGTGCTTCCTCGAAGATGTTGGTGTGTCAGAAGAGAGAATTGATGATTATGAGAAATTCTTTCAGTTCTTGAAAGCTACAATATGTTCTGCTGATGACATGGGGAAAAGGTGCCATCAAATTTACCAAGCTAGAAGCATGGCCATGGACTTGTTAGGAAGGTAA 3654 43.49 MGKQKQQVISRFFAPKPKSPSLSSSSSSASASAALTPPTQPFSPPKISATVTFSPSKRLISSALASQLTPPKSSKRPKLSPHTQNPLPSVPSPSLHKRFLDKFLEPTDDSFEPSNQNPRTSKGADSKYTPLELQVEDLKKRYPDVLLMVEVGYRYRFFGQDAEIAARVLGIYAHLDHNFMTASIPTFRLNVHVRRLVSAGYKVGVVKQTETAAIKAHGSNKLGPFCRGLSALYTKATLEAAQNLGGAEEGCGGESNYLFCVVENSMLVDNLDFRIENGVDVKIGMVAMEISTGDVIYGEYDDNFMRSGLEAMLLSLSPAELLLGDPISKPTEKLEAFLFTATLNFVACCIDCVGCMPLDCVVRPRNSIMGCVWMEEGSGYFPGKYWVCGWLSPNQMLFQELFQGEERDSGAGDHLNMGLLLGYAGPASNVRVEHVSRDCFKDGSALAEVMSLYENIDQDNLAEQNNPETVLVGQKSDRTAIKEIVNMPNLALQALALTIRHLRQFGLERIVSLGSSFRPFSCKMEMTLSGNTLTQLEVLKNNDDGSQTGSLLQCMNHTLTIFGSRLLRQWITHPLCDRDMIIARQEAVSEIAASMVSSKVSQNNRVLDEEDSDVMVIEPELNYILSSVLTTLGRAPDIQRGITRIFHRTAAPSEVLRVTFIFVVLGFIAVIQAILFAGKQLQQFHIDEEDDNYSSDSLIASKLLRKLILSASSSGLINIAAKLLSMISKEAADQGDFPNLMIIYGDQFPKVARARKEAQSAREKLDSLITLYRKHLGMRRLEFTIVSGTTHLIELALDVKVPSNWVKVNSTKKTVRYRPPEVLAALDELSLANEELMVASRDAWDGFLSGFSRYYAEFQAAVQALASIDCLYSLAILSRNKVTFYNYARPEFVHDDEPAQIFICSGRHPVLEGTLQGNFVPNNTNLDVNGEHCQIVTGPNMGGKSCYIRQVALIALMAQVGSFVPALSAKLHVLDGIYTRMGASDSIQQGRSTFLEEMTETSHILHHSTSRSLVIIDELGRGTSTHDGVAIAYAALHNLLQQKKCLVLFVTHYPKVAEIAKEFPASAGVYHVSYLTSHKNPSLPGPKSTDEDVTYLYKLVPGVAESSFGFKVAQLAQIPLSCIARATEMGVWLEEIVTRRAQRKSTEQHLQEASAKGLEWESFQCFLEDVGVSEERIDDYEKFFQFLKATICSADDMGKRCHQIYQARSMAMDLLGR 1217
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
5 20213692 20222260 + Lsi05G012360.1 Lsi05g01236 663728

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi05g01236 1217 Pfam MutS domain II 278 357 IPR007860 GO:0005524|GO:0006298|GO:0030983
Lsi05g01236 1217 Gene3D - 725 851 - -
Lsi05g01236 1217 PANTHER DNA MISMATCH REPAIR PROTEIN MUTS FAMILY MEMBER 419 1210 IPR045076 GO:0005524|GO:0006298|GO:0030983|GO:0140664
Lsi05g01236 1217 SMART mutATP5 931 1131 IPR000432 GO:0005524|GO:0006298|GO:0030983
Lsi05g01236 1217 PANTHER DNA MISMATCH REPAIR PROTEIN MSH3 103 336 - -
Lsi05g01236 1217 MobiDBLite consensus disorder prediction 109 124 - -
Lsi05g01236 1217 Gene3D DNA repair protein MutS, domain I 118 247 IPR016151 GO:0005524|GO:0006298|GO:0030983
Lsi05g01236 1217 Gene3D - 887 1167 IPR027417 -
Lsi05g01236 1217 Coils Coil 751 771 - -
Lsi05g01236 1217 SMART DNAend 546 914 IPR007696 GO:0005524|GO:0006298|GO:0030983
Lsi05g01236 1217 SUPERFAMILY DNA repair protein MutS, domain I 125 237 IPR016151 GO:0005524|GO:0006298|GO:0030983
Lsi05g01236 1217 MobiDBLite consensus disorder prediction 17 37 - -
Lsi05g01236 1217 Pfam MutS domain I 129 239 IPR007695 GO:0005524|GO:0006298|GO:0030983
Lsi05g01236 1217 Gene3D - 528 875 - -
Lsi05g01236 1217 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 887 1130 IPR027417 -
Lsi05g01236 1217 MobiDBLite consensus disorder prediction 62 128 - -
Lsi05g01236 1217 PANTHER DNA MISMATCH REPAIR PROTEIN MSH3 419 1210 - -
Lsi05g01236 1217 Pfam MutS domain III 531 875 IPR007696 GO:0005524|GO:0006298|GO:0030983
Lsi05g01236 1217 PANTHER DNA MISMATCH REPAIR PROTEIN MUTS FAMILY MEMBER 103 336 IPR045076 GO:0005524|GO:0006298|GO:0030983|GO:0140664
Lsi05g01236 1217 Pfam MutS domain V 934 1129 IPR000432 GO:0005524|GO:0006298|GO:0030983
Lsi05g01236 1217 MobiDBLite consensus disorder prediction 1 50 - -
Lsi05g01236 1217 ProSitePatterns DNA mismatch repair proteins mutS family signature. 1012 1028 IPR000432 GO:0005524|GO:0006298|GO:0030983
Lsi05g01236 1217 Gene3D MutS, connector domain 252 353 IPR036678 GO:0005524|GO:0006298|GO:0030983
Lsi05g01236 1217 Gene3D MutS, connector domain 405 525 IPR036678 GO:0005524|GO:0006298|GO:0030983
Lsi05g01236 1217 SUPERFAMILY DNA repair protein MutS, domain III 531 879 IPR036187 -
Lsi05g01236 1217 MobiDBLite consensus disorder prediction 62 91 - -
Lsi05g01236 1217 SUPERFAMILY DNA repair protein MutS, domain II 254 331 IPR036678 GO:0005524|GO:0006298|GO:0030983
Lsi05g01236 1217 PIRSF Msh6 113 346 IPR017261 GO:0006298|GO:0030983
Lsi05g01236 1217 PIRSF Msh6 430 1186 IPR017261 GO:0006298|GO:0030983
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi05g01236 K08736 MSH3; DNA mismatch repair protein MSH3 - csv:101214720 1360.9
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi05g01236 Lsi-Chr5:20213692 Lsi05g01777 Lsi-Chr5:25073377 3.54E-21 dispersed
Lsi02g02472 Lsi-Chr2:31219217 Lsi05g01236 Lsi-Chr5:20213692 1.39E-38 transposed
Lsi07g00331 Lsi-Chr7:3499196 Lsi05g01236 Lsi-Chr5:20213692 4.30E-15 transposed
Lsi11g00267 Lsi-Chr11:2690267 Lsi05g01236 Lsi-Chr5:20213692 5.31E-06 transposed
Lsi05g01236 Lsi-Chr5:20213692 Lsi09g00439 Lsi-Chr9:4649948 7.74E-32 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
Vvi16g655 . . . . . . . . Cmo16g00135 . . . . . Sed08g0333 . . Bhi01g01330 Tan01g0263 Cmetu06g0071 . Hepe07g0166 Mch10g0163 . Cla01g00411 Cam01g0429 Cec01g0420 Cco01g0442 Clacu01g0430 Cmu01g0412 Cre09g2100 Cone1ag1153 Cone5ag0862 . . Lsi05g01236 . . Cme06g00988 . Blo09g00106 . . . . . . . . . Cma16g00130 . Car16g00115 . . . . . . . . . . Cla05g00871 Cam05g0960 Cec05g0964 Cco05g0964 Clacu05g0946 Cmu05g0903 Cre05g0987 . Csa03g01702 Chy06g00938 .
       

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
OG0007018 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 2 1 1 1 1 1 1 1 1 1 5 2 1 36
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi05g01236 Lsi_Chr05 FPKM 14.148434 17.759705 6.388527 6.230368 5.608935 6.614168 4.457779 17.892843 19.143419 16.667736