Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi06g01348 AACAAGGCAAACCGTAAGCTTCAAACGATACAGAAGAAATGGATGAAAATGTCGACGAGCAAAGCAAGCTTCCCGAGCTCAAACTTGGTACAGTCTACAAAATCATCCTTTTCTTTTCCGGTTCTCTCTTTGCACATCGGCATTCTGAGTTTTTTAATCCATTTGGTTGAAAATGTTGACAGACGCCAAGCAGGCTCAAGGGACTCAAGAGCTGTTCGGTTTTTTGATCGTCGGGATTACTATACTGCCCATGGTGATAATGCAGTTTTTATTGCAAAGACCTATTACCGTACTACAACTGCTTTACGGCAACTGGGCAATGTATCTGAAGCCCTGTCTAGTGTGAGTGTCAGCAAAAATATGTTTGAATCCATTACTCGAGATCTTCTTTTGGAAAGAATGGACCATACATTGGAGCTTTATGAGGGTAGTGGTTCAAATTGGAGACTGATCAAAAGTGGATCACCTGGTAATATTGGCAGTTTCGAAGATGTTTTGTTTGCAAATAATGAAATGCAGGATAGCCCTGCTATCGTGGCACTATTTCCGTACTTTCGAGAAAATGGGTGCATTGTCGGACTAGGCTATGTTGATTTAACAAAAAGAGTGATGGGGATGGCTGAATTTCTCGATGATAGCCATTTTACAAATGTGGAGTCAGCTCTGGTTGGTCTTGGTTGTAAGGAATGCCTTCTGCCTCTAGAAAGTGGAAAGTTTGGTGATATCAAACCTTTACACGATGCATTGACAAAGTGCGGTGTGATGCTAACTGAGAGGAAGAAATCAGAATTTAAAATGAGAGATTTGGTGCAGGATCTTTCAAGGCTTGTCAAGGGTTCTGTTGAACCTGTTCGAGATTTGGTTTCTGGATTTGAATTTGCACCTGCTGCCTTAGGAGCACTTCTGGCTTATGCAGAATTACTGGCAGATGAAAGCAATTATGGAAGCTATAACATCCAGAAGTACAATCTTGATAGCTACATGAGGTTAGACTCTGCTGCCATGAGAGCATTAAACGTCCTAGAAAGCAAAACCGATGCAAACAAAAACTTCAGTTTGTTTGGTCTTATGAACAGAACCTGTACTGCTGGAATGGGTAAAAGATTGCTTCATATGTGGTTAAAACAGCCTCTGTTAGATGTCAAAGAAATAAGTTCTAGACTGGATCTTGTTCAAGCATTTGTGGAGGATACTGCTCTCCGCCAAGATTTGAGACAGCATCTCAAAAGAATCTCAGATCTTGAACGATTGACGCACTATCTCGAGAAGAGAAGAGCTGGATTACAGCACATTGTCAAACTTTATCAGGATGCATTTAGATACGTAAAAGGAAAGAATTTGATTTTATTTCCTCTTGTTTTTTATTTGGGTTTAGGGTTAAATCTTGGCACTGGGTTAATCAAGTCAAGTATAAGGCTTCCATTCATTAAAAATGCCCTGGAGAACTATGAAGGACAATTTTCCTCATTGATCAAGGAAAAATACTTGGAATTTCTTGAGATCTGGACTGACAATGATCACCTGAGCAAGTTCAATAATCTCGTGGAAACTGCTGTTGATCTTGATCAGCTTGAGAATGGAGAATATATGATTTCATCTAGTTATGACCCTGCTCTGTCTAAATTGAAAAATGTGCAAGAATCAATAGAGCAGCAAATACAGGACTTGCATAGGCAAGTTGCTAATGATCTTGATCTTCCAGTTGACAAGGCTTTGAAGTTGGACAAAGGTACACAATTTGGACACGTTTTTAGAATTACTAAGAAAGAAGAACCAAAAGTAAGGAAAAAGCTCTCCACCCACTTCATTGTTCTTGAAACCCGAAAAGATGGAGTGAAGTTTACAAATTCTAAACTTAAAAAGCTGGGTGACCAGTATCAGAAAATAGTCGAGGAGTACAAAAGTTGCCAGAAAGAGTTGGTTCACCGAGTAATTGAAACTGCATCATCCTTCAATGAGGTGGATTTTATGTCGATGATGTATCTGTTATTTATTAGCACTTTAATTGAACTTAAAGAACTTTGTGTGTTTGTATTCAGACCTTTGGCGGAATTGCTCTCTGAATTGGATGTTTTACTTGGTTTTGCTGATTTAGCCTCTAGCTGTCCCACTCCTTATACTAGACCAGACATCACTTCATCGGTATCTTTTTTACCGTTGGTTATCTTAAGCCCCAAAGGATATTGTATCTCAATTAAAAATTGCAATTACTCAAAATTTAACTTGTTACTGGCCATCTGCAACAGGATGAGGGAAATATTATATTGGAAGGAAGTCGGCACCCCTGTGTGGAGGCTCAAGACTGGGTTAATTTCATACCAAATGATTGTTGGAGTGAACATTCTAATGGCACAAGTAGGTTGTTTTGTTCCCTGTGACAAAGCTAGCATTTCTGTTCGTGACTGCATTTTTGCCCGCGTAGGTGCAGGTGACTGTCAACTTCGTGGAGTTTCTACCTTTATGCAAGAGATGCTTGAAACTGCATCTATACTGAAGGGAGCTACAGAGAAATCTTTGATAATCATCGATGAATTGGGTCGTGGGACATCCACTTATGATGGATTTGGTTCCATGTTGCATGAAGAACTTAAGGAGATCAGTTTATCCAATAAAATTGATCTTTCTTTCACCTATTCGACTTCACTTGCTGAAAATCGTAGTCTAGCATGGGCCATTTGTGAACATCTTGTTGAAGTGATTAAAGCACCCACTTTGTTTGCAACCCACTTCCATGAACTTACTGCACTAGCTCATGGGAATACTGATCTTGAGCCCCATGGAAAGCAAATGGTTGGTGTGGCAAATTTTCATGTCAGTGCACACATAGACTCGTCAAATCACAAGTTGACAATGCTATACAAGATTTGTGAGGAAAGACGAGGAAATGAAGCTCCGGTAGTATATTTTTCTGAATACATTAATATTATAGAAGTAAAACACACAGGAGGATATCAAAGTCATTGTCTTCTAAGATCTATTCAAGAATTGTGTGGAACTAACACTTGTGAATTTAGCCTTGTTATTTTACCTATGATTTCACTTCAGAAGCTAAATTTATTCCTTCAAGTAGGGGTGTCATATGTTGAACCTGGAGCTTGTGATCAAAGCTTTGGGATTCATGTAGCAGAATTTGCAAATTTTCCTTCTAGTGTCGTGGCACTTGCCAGAGAAAAGGCTGCTGAACTGGAAGACTTCTCCACTGATACAACTACTTCAGCCACTACTGGGAAAGAGATACCATTAAAGCGAAAACGTGAGTTTGGTTCGGATGACATGTCCAAAGGTGTAGCACGGGCACGCCAGTTCTTAGAGGAGTTTTCTAATCTGCCCTTGGATAAAATGGATTTGAAGGAAGCTCTTCAACAAGTGAGTCAATTGCGAGATGGTTTGAAGAAGGATGCCGTGGACTCTAATTGGCTCCAACAATTTCTTTGA 3435 39.65 NKANRKLQTIQKKWMKMSTSKASFPSSNLVQSTKSSFSFPVLSLHIGILSFLIHLVENVDRRQAGSRDSRAVRFFDRRDYYTAHGDNAVFIAKTYYRTTTALRQLGNVSEALSSVSVSKNMFESITRDLLLERMDHTLELYEGSGSNWRLIKSGSPGNIGSFEDVLFANNEMQDSPAIVALFPYFRENGCIVGLGYVDLTKRVMGMAEFLDDSHFTNVESALVGLGCKECLLPLESGKFGDIKPLHDALTKCGVMLTERKKSEFKMRDLVQDLSRLVKGSVEPVRDLVSGFEFAPAALGALLAYAELLADESNYGSYNIQKYNLDSYMRLDSAAMRALNVLESKTDANKNFSLFGLMNRTCTAGMGKRLLHMWLKQPLLDVKEISSRLDLVQAFVEDTALRQDLRQHLKRISDLERLTHYLEKRRAGLQHIVKLYQDAFRYVKGKNLILFPLVFYLGLGLNLGTGLIKSSIRLPFIKNALENYEGQFSSLIKEKYLEFLEIWTDNDHLSKFNNLVETAVDLDQLENGEYMISSSYDPALSKLKNVQESIEQQIQDLHRQVANDLDLPVDKALKLDKGTQFGHVFRITKKEEPKVRKKLSTHFIVLETRKDGVKFTNSKLKKLGDQYQKIVEEYKSCQKELVHRVIETASSFNEVDFMSMMYLLFISTLIELKELCVFVFRPLAELLSELDVLLGFADLASSCPTPYTRPDITSSVSFLPLVILSPKGYCISIKNCNYSKFNLLLAICNRMREILYWKEVGTPVWRLKTGLISYQMIVGVNILMAQVGCFVPCDKASISVRDCIFARVGAGDCQLRGVSTFMQEMLETASILKGATEKSLIIIDELGRGTSTYDGFGSMLHEELKEISLSNKIDLSFTYSTSLAENRSLAWAICEHLVEVIKAPTLFATHFHELTALAHGNTDLEPHGKQMVGVANFHVSAHIDSSNHKLTMLYKICEERRGNEAPVVYFSEYINIIEVKHTGGYQSHCLLRSIQELCGTNTCEFSLVILPMISLQKLNLFLQVGVSYVEPGACDQSFGIHVAEFANFPSSVVALAREKAAELEDFSTDTTTSATTGKEIPLKRKREFGSDDMSKGVARARQFLEEFSNLPLDKMDLKEALQQVSQLRDGLKKDAVDSNWLQQFL 1144
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
6 24071933 24079485 - Lsi06G013480.1 Lsi06g01348 666078

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi06g01348 1144 PANTHER DNA MISMATCH REPAIR PROTEIN MSH2 1028 1126 IPR032642 GO:0003677|GO:0005524|GO:0006298|GO:0032300
Lsi06g01348 1144 ProSitePatterns DNA mismatch repair proteins mutS family signature. 838 854 IPR000432 GO:0005524|GO:0006298|GO:0030983
Lsi06g01348 1144 PANTHER DNA MISMATCH REPAIR PROTEIN MSH2 71 858 IPR032642 GO:0003677|GO:0005524|GO:0006298|GO:0032300
Lsi06g01348 1144 PANTHER DNA MISMATCH REPAIR PROTEIN MSH2 880 957 IPR032642 GO:0003677|GO:0005524|GO:0006298|GO:0032300
Lsi06g01348 1144 Gene3D DNA repair protein MutS, domain I 52 155 IPR016151 GO:0005524|GO:0006298|GO:0030983
Lsi06g01348 1144 Gene3D - 532 616 - -
Lsi06g01348 1144 Gene3D - 1025 1141 IPR027417 -
Lsi06g01348 1144 SMART mutATP5 772 1060 IPR000432 GO:0005524|GO:0006298|GO:0030983
Lsi06g01348 1144 Gene3D - 772 964 IPR027417 -
Lsi06g01348 1144 Pfam MutS domain II 186 316 IPR007860 GO:0005524|GO:0006298|GO:0030983
Lsi06g01348 1144 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 777 855 IPR027417 -
Lsi06g01348 1144 Pfam MutS domain V 773 856 IPR000432 GO:0005524|GO:0006298|GO:0030983
Lsi06g01348 1144 Pfam MutS domain V 880 958 IPR000432 GO:0005524|GO:0006298|GO:0030983
Lsi06g01348 1144 Gene3D MutS, connector domain 156 325 IPR036678 GO:0005524|GO:0006298|GO:0030983
Lsi06g01348 1144 SUPERFAMILY DNA repair protein MutS, domain III 331 701 IPR036187 -
Lsi06g01348 1144 SMART DNAend 348 724 IPR007696 GO:0005524|GO:0006298|GO:0030983
Lsi06g01348 1144 Coils Coil 1113 1133 - -
Lsi06g01348 1144 Pfam MutS domain I 67 162 IPR007695 GO:0005524|GO:0006298|GO:0030983
Lsi06g01348 1144 Gene3D - 327 527 - -
Lsi06g01348 1144 Coils Coil 619 639 - -
Lsi06g01348 1144 Pfam MutS family domain IV 535 631 IPR007861 GO:0005524|GO:0006298|GO:0030983
Lsi06g01348 1144 PANTHER DNA MISMATCH REPAIR PROTEIN MUTS FAMILY MEMBER 71 858 IPR045076 GO:0005524|GO:0006298|GO:0030983|GO:0140664
Lsi06g01348 1144 PANTHER DNA MISMATCH REPAIR PROTEIN MUTS FAMILY MEMBER 880 957 IPR045076 GO:0005524|GO:0006298|GO:0030983|GO:0140664
Lsi06g01348 1144 PANTHER DNA MISMATCH REPAIR PROTEIN MUTS FAMILY MEMBER 1028 1126 IPR045076 GO:0005524|GO:0006298|GO:0030983|GO:0140664
Lsi06g01348 1144 PIRSF MSH2 464 663 IPR011184 GO:0005524|GO:0006298|GO:0030983
Lsi06g01348 1144 PIRSF MSH2 1019 1144 IPR011184 GO:0005524|GO:0006298|GO:0030983
Lsi06g01348 1144 PIRSF MSH2 58 447 IPR011184 GO:0005524|GO:0006298|GO:0030983
Lsi06g01348 1144 PIRSF MSH2 663 859 IPR011184 GO:0005524|GO:0006298|GO:0030983
Lsi06g01348 1144 PIRSF MSH2 879 961 IPR011184 GO:0005524|GO:0006298|GO:0030983
Lsi06g01348 1144 Coils Coil 539 559 - -
Lsi06g01348 1144 Pfam MutS domain III 334 696 IPR007696 GO:0005524|GO:0006298|GO:0030983
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi06g01348 K08735 MSH2; DNA mismatch repair protein MSH2 - csv:101215589 1325.07
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi06g01348 Lsi-Chr6:24071933 Lsi11g00267 Lsi-Chr11:2690267 6.77E-09 dispersed
Lsi06g01348 Lsi-Chr6:24071933 Lsi09g00439 Lsi-Chr9:4649948 7.31E-22 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
Vvi17g364 . . Bda06g00491 . . . . Bma12g00941 . . Cma10g00249 . Car10g00237 . . . . . . . . . . . Cla06g01486 Cam06g1640 Cec06g1700 Cco06g1698 Clacu06g1606 Cmu06g1555 Cre06g2367 . . . Cone19ag0263 . . . . . Blo15g00365 . . Bpe07g00731 . . . . Cmo10g00269 . . . . . . Cpe18g00743 . . . . . . . . . . . . . . Lsi06g01348 Csa01g00363 Chy02g02380 Cme02g01765
       

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
OG0007788 1 1 1 2 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 6 1 36
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi06g01348 Lsi_Chr06 FPKM 2.835606 4.094182 1.218252 0.710864 1.011145 2.025959 1.26636 0.95299 0.697816 1.006203