Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi01g01175 ATGAACGGCAGCGCTCGGAAAAGTCGACCGCCGCCGCAGCACCCATCGCCGGCTCCACCGACCAAGCACCAGACACTTTCTCAAGAGGAAGATTTCGTCGACGAAGATGTCTTCCTCGACGAGAATCTTCTCGATGAGGACGCTCTCATCCTCCGCGACATCGAGGAGCGTCAGGCCCTTGCTTCCCGGCTCTCCAAGTGGGCTCGTCCACCTCTTTCCCAGGATTACCTGTCCCAGTCAAAGAGCATCGTGTTTCAGCAATTGGAAATTGATTACGTGATCGGGGAAAGTCACAGAGAACTGTTGCCTAATTTGTCCGGTCCTGCCGCCATTCTTAGAATTTTTGGGGTTACGAGGGAAGGACATGGTGTATGCTGCCACGTTCATGGTTTTGAACCATACTTCTATATCAGTTGTCCTCCAGGCATGGGTCCTGATGACATCTCTCTTTTTCACCGAACTCTTGAGGCTAGAATGAAGGAGGTAAACAGGAACAGTAAAGCACCTAACTTTGTGCGTCGCATTGAATTGGTGCAAAAGAGAAGTATTCTTGATAGAGGCATACAAATTGATGGCTTTGGTATGAAGAGCTTCCTGACGTATGAAAGCAATGTGCTTTTTGCCCTCCGTTTTATGATTGACTGCAATGTTGTTGGTGGAAACTGGATTGAGACAGGCCTTTTAATCTTGACACCTTTCCTTAACACTCATCATAGATATTCAGACTTGATCAGCCATGCCCCAGAAGGGGAATTTTCTAAAATGGCTCCATTTCGGATATTGAGTTTTGATATTGAGTGTGCAGGGCGTAAAGGCCATTTTCCTGAGCCTACCCAGGATCCCGTGATTCAGGTGGCAAACCTAGTTACTTTGCAGGGAGAGGACCAACCATTCTTTCGCAATGTCATGACCCTTAACTCTTGCTCTCCTATCGCGGGTGTTGATGTCTTATCATTTGATACAGAACGAGAAGTATTGCTGGCTTGGAGGGATCTAATTCGTGAAGTAGACCCTGATATAATAATTGGATATAACATCTGCAAATTCGATTTGCCATATCTAATCGAGGTTATGCAACGAGATTATAAATTAAGTTCGTACTCGTTGAATTCTGTCTCTTCACATTTCCTTTCTGAACAGAAAGAGGATGTCCACCATTCAATAATATCAGATCTTCAAAATGGTAATGCGGAAACCCGGAGACGGCTTGCTGTTTATTGTTTAAAGGATGCCTATCTTCCACAACGGCTTTTAGATAAACTGATGTTCATTTACAATTATGTGGAGATGGCTCGAGTAACTGGTGTTCCTATTTCTTTTCTTCTTTCAAGAGGGCAAAGCATCAAGGTGCTCTCTCAACTCCTTAGGAAGGCTAAACAGAAAAACCTCGTTATTCCAAATGCTAAACATGCAGGATCTGATCAAGGAACCTATGAGGGTGCTACTGTTTTGGAAGCAAGGGCTGGGTTCTATGAAAAGCCCATTGCTACGCTGGATTTTGCATCTCTATATCCATCCATCATGATGGCATATAATTTATGTTATTGCACTCTGGTGACTCCAGAAGATGCTCGTAAGCTAAACCTGCCCCCTGAACATTTCAACAAAACCCCATCTGGTGAGATATTTGTCAAGCCAAATTTACAGAAGGGGATACTTCCTGAAATATTAGAAGAACTATTGACTGCTCGGAAAAGAGCAAAGGCAGATTTGAAGGAAGCGAAGGATCCGTTTGAGAAGGCTGTGTTGGATGGTCGACAGCTAGCTCTGAAGATAAGTGCAAATTCTGTGTATGGGTTTACAGGAGCTACTGTTGGTCAGTTGCCGTGTATAGAGATATCATCAAGTGTTACAAGCTATGGCCGACAAATGATTGAACACACAAAGAAGCTTGTGGAAGATAAATTTACAACGCTTGGGGGATATGAGCACAATGCTGAGGTAATCTATGGTGATACAGATTCCGTTATGGTACAATTTGGTGTTCCCAGTGTAGAAGCAGCAATGATCTTGGGAAGGGAAGCAGCTGACTATATCAGTGGTACTTTCATAAAACCTATCAAGTTAGAGTTTGAGAAGGTATATTATCCATATCTATTGATTAGTAAGAAGAGATACGCTGGTTTATTTTGGACTAATCCAAACAAGTTTGACAAGATGGATACCAAAGGTATTGAAACAGTTCGAAGAGATAATTGCTTATTGGTGAAAAACCTTGTAAATGAGTGCTTGCACAAAATTCTTATCGATAGAGATGTCCCTGGGGCCGTTCAATATGTGAAGAACACGATTTCAGATCTGCTTATGAATCGTGTGGATTTATCACTGTTGGTTATCACCAAGGGACTAACAAAAACTGGAGATGATTATGAAGTGAAGGCAGCTCATGTTGAACTTGCTGAGCGCATGCGTAAGGTACTTCGGAGATGGTCCCAAGGTAGGGTCTCTTTGGAGGAGTTGGAGGATCTCTCTTCTGCAAGTGTTTTAAAAGATATTGGACCTTTCAAGGAATTCTCGTCTGCAATAGGAGCATCTGGAGATCGAGATGCCAGTGCAAGGAAAGATGCTGCCACTGCTCCAAATGTTGGCGATCGAGTACCTTATGTGATCATTAAAGCAGCAAAAGGTGCCAAGGCATATGAGAGGTCAGAGGATCCCATTTATGTTCTAGAGAATAGCATACCAATAGACCCTCAGTACTATCTCGAGAATCAGATTAGCAAGCCTCTTCTACGAATTTTTGAGCCCATCTTGAAAAACGCTAGCAAGGAACTTTTACATGGAAGTCACACGAGATCAATTTTTATTTCTACTCCGTCAAATGGTGGCATAATGAAATTTGCTAAGAAACAGCTTACCTGCATTGGCTGCAAGGCTCTACTAAGGGAGACAAAACTCTCTGCTCACACTGCAAAGGAAGAGAAGCGGAACTTTACTGCAAAGCGGTTGCAAGTGTGTCTGATTTGGAGATGGTTTTTGGGAGGCTTTGGACACAGTGCCAAGAATGCCAAGGAGCTCGTGGTTCTCTTGCACCATAGTGGCCATCCTCTAGCGAAGTTTCCAACTTCTTTCCACCTAGGAGTTATAGAAAATTACCATTGA 3102 43.36 MNGSARKSRPPPQHPSPAPPTKHQTLSQEEDFVDEDVFLDENLLDEDALILRDIEERQALASRLSKWARPPLSQDYLSQSKSIVFQQLEIDYVIGESHRELLPNLSGPAAILRIFGVTREGHGVCCHVHGFEPYFYISCPPGMGPDDISLFHRTLEARMKEVNRNSKAPNFVRRIELVQKRSILDRGIQIDGFGMKSFLTYESNVLFALRFMIDCNVVGGNWIETGLLILTPFLNTHHRYSDLISHAPEGEFSKMAPFRILSFDIECAGRKGHFPEPTQDPVIQVANLVTLQGEDQPFFRNVMTLNSCSPIAGVDVLSFDTEREVLLAWRDLIREVDPDIIIGYNICKFDLPYLIEVMQRDYKLSSYSLNSVSSHFLSEQKEDVHHSIISDLQNGNAETRRRLAVYCLKDAYLPQRLLDKLMFIYNYVEMARVTGVPISFLLSRGQSIKVLSQLLRKAKQKNLVIPNAKHAGSDQGTYEGATVLEARAGFYEKPIATLDFASLYPSIMMAYNLCYCTLVTPEDARKLNLPPEHFNKTPSGEIFVKPNLQKGILPEILEELLTARKRAKADLKEAKDPFEKAVLDGRQLALKISANSVYGFTGATVGQLPCIEISSSVTSYGRQMIEHTKKLVEDKFTTLGGYEHNAEVIYGDTDSVMVQFGVPSVEAAMILGREAADYISGTFIKPIKLEFEKVYYPYLLISKKRYAGLFWTNPNKFDKMDTKGIETVRRDNCLLVKNLVNECLHKILIDRDVPGAVQYVKNTISDLLMNRVDLSLLVITKGLTKTGDDYEVKAAHVELAERMRKVLRRWSQGRVSLEELEDLSSASVLKDIGPFKEFSSAIGASGDRDASARKDAATAPNVGDRVPYVIIKAAKGAKAYERSEDPIYVLENSIPIDPQYYLENQISKPLLRIFEPILKNASKELLHGSHTRSIFISTPSNGGIMKFAKKQLTCIGCKALLRETKLSAHTAKEEKRNFTAKRLQVCLIWRWFLGGFGHSAKNAKELVVLLHHSGHPLAKFPTSFHLGVIENYH 1033
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
1 9981709 9999517 + Lsi01G011750.1 Lsi01g01175 653833

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi01g01175 1033 Gene3D - 704 820 IPR042087 -
Lsi01g01175 1033 PANTHER DNA POLYMERASE CATALYTIC SUBUNIT 355 976 - -
Lsi01g01175 1033 PANTHER DNA POLYMERASE CATALYTIC SUBUNIT 81 356 - -
Lsi01g01175 1033 CDD POLBc_delta 477 918 - -
Lsi01g01175 1033 PRINTS DNA-directed DNA-polymerase family B signature 587 599 IPR006172 GO:0000166|GO:0003676|GO:0003887
Lsi01g01175 1033 PRINTS DNA-directed DNA-polymerase family B signature 495 508 IPR006172 GO:0000166|GO:0003676|GO:0003887
Lsi01g01175 1033 PRINTS DNA-directed DNA-polymerase family B signature 648 656 IPR006172 GO:0000166|GO:0003676|GO:0003887
Lsi01g01175 1033 SUPERFAMILY DNA/RNA polymerases 461 919 IPR043502 -
Lsi01g01175 1033 SUPERFAMILY Ribonuclease H-like 109 442 IPR012337 -
Lsi01g01175 1033 Pfam DNA polymerase family B 854 917 IPR006134 GO:0000166|GO:0003677
Lsi01g01175 1033 Pfam DNA polymerase family B 436 805 IPR006134 GO:0000166|GO:0003677
Lsi01g01175 1033 SMART polmehr3 256 662 IPR006172 GO:0000166|GO:0003676|GO:0003887
Lsi01g01175 1033 Gene3D Palm domain of DNA polymerase 480 703 IPR023211 -
Lsi01g01175 1033 Gene3D - 78 148 - -
Lsi01g01175 1033 PANTHER DNA POLYMERASE DELTA CATALYTIC SUBUNIT 355 976 - -
Lsi01g01175 1033 PANTHER DNA POLYMERASE DELTA CATALYTIC SUBUNIT 81 356 - -
Lsi01g01175 1033 Gene3D - 357 479 IPR036397 GO:0003676
Lsi01g01175 1033 Gene3D DNA Polymerase, chain B, domain 1 181 231 - -
Lsi01g01175 1033 ProSitePatterns DNA polymerase family B signature. 650 658 IPR017964 GO:0000166|GO:0003676
Lsi01g01175 1033 Gene3D - 846 927 IPR042087 -
Lsi01g01175 1033 MobiDBLite consensus disorder prediction 1 31 - -
Lsi01g01175 1033 Pfam DNA polymerase family B, exonuclease domain 118 381 IPR006133 -
Lsi01g01175 1033 Gene3D - 257 356 IPR036397 GO:0003676
Lsi01g01175 1033 Gene3D Helix hairpin bin 551 603 - -
Lsi01g01175 1033 TIGRFAM pol2: DNA polymerase (pol2) 470 806 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi01g01175 K02327 POLD1; DNA polymerase delta subunit 1 [EC:2.7.7.7] - csv:101219332 1656.73
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi01g01175 Lsi-Chr1:9981709 Lsi11g00572 Lsi-Chr11:6055992 1.10E-71 dispersed
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Lsi08g00008 . 108 393 Core DNA Replication Machinery Family AT4G14700 52.6 2.6e-76 283.9
Lsi08g00009 . 1 140 Core DNA Replication Machinery Family AT4G14700 68.1 5.7e-55 213.0
Lsi08g00008 . 108 393 Core DNA Replication Machinery Family AT4G12620 55.3 1.1e-82 305.1
Lsi08g00009 . 1 140 Core DNA Replication Machinery Family AT4G12620 69.5 6.8e-56 216.1
Lsi08g01455 . 2 372 Core DNA Replication Machinery Family AT2G37560 63.6 2.3e-138 488.8
Lsi04g01057 . 6 378 Core DNA Replication Machinery Family AT2G01120 63.4 1.4e-134 476.5
Lsi09g01574 . 3 536 Core DNA Replication Machinery Family AT4G29910 58.6 8.6e-175 610.5
Lsi11g00986 . 1 283 Core DNA Replication Machinery Family AT1G26840 65.4 1.7e-94 342.8
Lsi11g01609 . 80 903 Core DNA Replication Machinery Family AT1G79150 54.4 4.0e-229 791.6
Lsi03g01268 . 8 940 Core DNA Replication Machinery Family AT1G44900 75.7 0.0e+00 1352.8
Lsi01g00160 . 107 687 Core DNA Replication Machinery Family AT5G46280 78.6 4.3e-259 890.6
Lsi11g01129 . 1 931 Core DNA Replication Machinery Family AT2G16440 69.3 0.0e+00 1105.9
Lsi11g00378 . 1087 1862 Core DNA Replication Machinery Family AT2G07690 73.6 0.0e+00 1080.9
Lsi01g00004 . 7 923 Core DNA Replication Machinery Family AT5G44635 61.5 2.1e-310 1061.6
Lsi02g02475 . 4 722 Core DNA Replication Machinery Family AT4G02060 85.1 0.0e+00 1218.0
Lsi10g01424 . 36 481 Core DNA Replication Machinery Family AT2G29680 50.6 7.8e-127 451.1
Lsi10g01424 . 37 483 Core DNA Replication Machinery Family AT1G07270 52.1 1.7e-120 429.9
Lsi02g02100 . 758 1350 Core DNA Replication Machinery Family AT3G25100 76.4 2.5e-257 884.8
Lsi03g02053 . 26 672 Core DNA Replication Machinery Family AT3G09660 66.3 2.9e-237 818.5
Lsi03g02054 . 12 181 Core DNA Replication Machinery Family AT3G09660 81.2 6.6e-72 269.2
Lsi03g00736 . 22 377 Core DNA Replication Machinery Family AT2G14050 67.4 9.9e-151 530.8
Lsi03g00738 . 16 198 Core DNA Replication Machinery Family AT2G14050 53.0 2.5e-45 180.6
Lsi10g00493 . 1890 2300 Core DNA Replication Machinery Family AT2G20980 55.5 8.0e-119 424.1
Lsi02g02726 . 1 200 Core DNA Replication Machinery Family AT1G80190 67.3 9.5e-76 280.0
Lsi03g00967 . 1 145 Core DNA Replication Machinery Family AT3G12530 73.1 4.9e-61 230.7
Lsi03g00307 . 5 188 Core DNA Replication Machinery Family AT1G19080 68.5 1.9e-70 262.3
Lsi03g00307 . 5 188 Core DNA Replication Machinery Family AT3G55490 68.5 1.9e-70 262.3
Lsi05g02052 . 6 171 Core DNA Replication Machinery Family AT5G49010 57.2 1.3e-45 179.9
Lsi10g00533 . 1 1707 Core DNA Replication Machinery Family AT5G67100 52.7 0.0e+00 1597.8
Lsi02g00133 . 2 572 Core DNA Replication Machinery Family AT1G67630 53.8 5.1e-181 631.3
Lsi09g01731 . 1 409 Core DNA Replication Machinery Family AT1G67320 59.1 4.2e-162 568.2
Lsi08g00158 . 10 382 Core DNA Replication Machinery Family AT5G41880 58.0 2.9e-125 445.7
Lsi08g00157 . 57 255 Core DNA Replication Machinery Family AT5G41880 60.4 1.1e-76 284.3
Lsi01g01175 . 1 968 Core DNA Replication Machinery Family AT5G63960 69.8 0.0e+00 1424.5
Lsi03g01734 . 1 550 Core DNA Replication Machinery Family AT2G42120 57.6 1.9e-177 619.0
Lsi09g01731 . 1 409 Core DNA Replication Machinery Family AT1G67320 59.1 4.2e-162 568.2
Lsi10g01177 . 1 1996 Core DNA Replication Machinery Family AT1G08260 64.8 0.0e+00 2626.3
Lsi02g01714 . 8 1499 Core DNA Replication Machinery Family AT1G08260 65.4 0.0e+00 1877.4
Lsi02g01713 . 15 187 Core DNA Replication Machinery Family AT1G08260 55.6 1.1e-44 180.3
Lsi10g01177 . 25 2103 Core DNA Replication Machinery Family AT2G27120 62.0 0.0e+00 2599.7
Lsi02g01714 . 31 1499 Core DNA Replication Machinery Family AT2G27120 63.2 0.0e+00 1778.5
Lsi02g01713 . 24 187 Core DNA Replication Machinery Family AT2G27120 53.9 5.6e-41 167.9
Lsi02g00021 . 74 324 Core DNA Replication Machinery Family AT5G22110 78.1 5.8e-119 424.9
Lsi02g00022 . 7 218 Core DNA Replication Machinery Family AT5G22110 59.2 2.6e-58 223.4
Lsi10g01127 . 71 1019 Core DNA Replication Machinery Family AT5G22010 59.9 1.9e-285 978.8
Lsi07g01383 . 54 433 Core DNA Replication Machinery Family AT1G63160 70.3 3.4e-139 491.5
Lsi01g01707 . 1 357 Core DNA Replication Machinery Family AT5G27740 79.3 1.3e-165 579.3
Lsi04g02414 . 36 285 Core DNA Replication Machinery Family AT1G21690 62.5 1.1e-97 353.6
Lsi08g00447 . 1 363 Core DNA Replication Machinery Family AT1G77470 76.6 1.5e-156 549.3
Lsi11g00167 . 26 618 Core DNA Replication Machinery Family AT2G06510 68.8 2.3e-253 871.7
Lsi07g01137 . 32 704 Core DNA Replication Machinery Family AT2G06510 51.0 1.2e-198 689.9
Lsi06g01410 . 1 623 Core DNA Replication Machinery Family AT5G08020 68.6 2.7e-251 864.8
Lsi07g01137 . 10 813 Core DNA Replication Machinery Family AT5G45400 52.5 4.0e-232 801.6
Lsi06g01410 . 1 618 Core DNA Replication Machinery Family AT5G61000 67.4 2.7e-246 848.2
Lsi07g01137 . 5 799 Core DNA Replication Machinery Family AT4G19130 54.8 1.1e-228 790.0
Lsi06g00020 . 1 385 Core DNA Replication Machinery Family AT5G26680 78.8 2.2e-175 612.1
Lsi07g00045 . 42 374 Core DNA Replication Machinery Family AT2G25100 59.5 7.1e-106 380.6
Lsi10g01227 . 44 804 Core DNA Replication Machinery Family AT1G08130 69.2 3.8e-298 1020.8
Lsi10g01227 . 204 804 Core DNA Replication Machinery Family AT1G49250 69.6 5.9e-244 840.5
       

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
OG0011899 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 30
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi01g01175 Lsi_Chr01 FPKM 57.111111 52.033985 33.857437 31.632233 45.619038 40.220497 37.637203 45.209423 49.78788 47.232185