Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi10g01127 ATGACGTGGCATAATACTTTTGTACCACACCCGGCCTTCACCCGCCAGAATCCTCGAGCCATTGCAATCTCCTTCACACGGAGGCCGCCGGCGATCTTCGACCAAGACGAACTGAAAGAGCTCAGTCGAACGGTGAACTTGACAGTGGAGTGGCGTTTCTTGCCTTTTGCACTCCGCCTTCCACTCTACAATGGTGAGTTAGGGTTTTCGGCGGATATTAGAAAATGGTTCATGAAAGCACACGATAAAGAGAACGGCAGTGGGTCAAAGAAAGCAAAACCTGCTCCAAGCAACTTAGACCAATCTGCTTCAGCTGAACTACAGTCCGGAAAAACAACTGGTCATGAAAAATTTCTACTTCATTGGCATGGCTTTTGTGGGCCGAGTGGTGGGGAAAGTACTGGCAGACGGATAACTAGCAAATATTTTGCATCAGAAAAGCAGAAGTCCAAGGATACAAAAGAAACAGAGGAAACCCCGATCAAACGAAAGTCTCCACAGGATACAAAGGAATCTCCAGCCAAAAGAAAGTTTCAAAAGGATAATGAGGAATCATTGAAAGCTTCACCTTTAAAAAAATCAAACAAAATTGATAACAGTGACGATGATGCTGTTTTTTCTAGTTCTGGAAAGAACATATCTGAAGTCACTCCCAACAAAAAGTTGAAGAGTGGTTCTGGAAAGGGAATTACACAGAAACCTGTAGAAATTGAAGTGAGTGATGATGAGGAAACTAAGGGCACCGATTCTTCTCTGAAGCCTAGTGGAAGGGGTAGGGGAGGAAGAGGTTCATCTGCTGCAACCGTTGGTGGTAGAGGCAGAGGTGGTGGGCGGGGTGGATTTATGAATTTTGGGGAAAGGAAAGATCCTCCACACAAAGGAGAAAAGGAAGTCCCTGAAGGTGCTTTGGACTGCTTAGCCGGTTTAACTTTTGTAATTAGTGGAACACTTGACAGTTTGGAACGAGAAGAAGCAGAAGATTTGATTAAACGCCACGGTGGTCGAGTAACTGGATCTAATTATCTACTATGTGATGAAGATATTGGTGGCCGAAAATCTTCCAAAGCAAAAGAGCTGGGAACTGGTTTTCTCACTGAGGATGGCTTATTTGACATGATCCGTTCGTCAGGCAAAAAAGCTCCTCCAAGGCAAGATCCTAAAAAATCTGTGGTTAAGTCCTCGGTGGAATCTCCGACAGGGAAAAAATTCCAGAAAGTACAAGAAAAGCCCCGCAAAGATTTGACTGCTGGTGCTTCACCTGCCAAGCAAAAATGCCGAACGGCTGAATTCTCTAACCTAATATGGACAGAAAAATATAGGCCAAAGGTTCCAAATGACATTATAGGGAATCAGTCACTGGTCAAACAACTTCATGATTGGTTGGCACATTGGAACAAGAACTTCCTAGATGTTGGAAGCAAAAAGAAGGTTAAAAAGCTCAATGATTCTAGTGCCAAAAAAGCTGTCTTGTTATGTGGAGGTCCTGGCATAGGTAAAACTACATCGGCTAAGTTGGTTAGCCAGATGCTTGGTTTTGAGGCTATAGAGGTAAATGCCAGCGACAATCGGGGTAAATCAGATGCCAAAATTCAAAAGGGAATTGGTGGAAGCAATGCAAATTCTATAAAGGAGCTTATCAGCAATGAATCACTGCATTTCAGAATGGATCAGCCAAAGCATCCGAAAACTGTGTTGATCATGGATGAGGTAGATGGAATGTCTGCTGGAGATAGGGGTGGAGTTGCTGATCTGATTGCGAGCATTAAAATGTCCAAAATTCCAATTATCTGCATCTGTAATGACCGTTACAGCCAGAAGCTGAAAAGCCTTGTGAACTATTGTCTTATTCTCAGCTATAGGAAACCTACAAAACAACAGATGGCAAAAAGATTGATTCAAGTTGCAAATGCAGAAGGCCTTCAAGTTAATGAGATTGCTCTTGAGGAACTTGCAGAAAGAGTAAATGGGGATATGCGTATGGCACTAAATCAGTTGCAGTACCTGAGTCTGTCTATGTCAGTTATTAAATATGATGATATTCGCCAACGGCTTCTGAGCAGTATGAAAGATGAAGACATCTCACCATTCACTGCTGTTGATAAGCTGTTTGGTTTTAATTCTGGGAAGTTAAGGATGGATGAACGGATTGACCTCAGCATGAGTGATCTTGATTTAGTCCCTCTTCTTATTCAGGAAAATTATATTAATTATAGGCCAAGCGCTGTTAGTAAGGATGACAATGGAATCAAACGGATGGATTTGATTGCCCGTACAGCTGAATCTATTGCAGATGGGGATATAATCAATGTACAGATTCGAAGGCATCGACAGTGGCAACTCTCTCAAAGTAGTTGTATTGCTTCTTGTGTAATCCCAGCGTCATTATTGCATGGGCAAAGAGAAACGCTTGAGCAGGTGATGAAATTCTGTACATGCAAGTTTATCAGTATGAGCGAACCATCAAGCCATCTTAATGGAGAGCGTAATTTTAATAGATTTGGTGCATGGCTGGGAAAAAATTCAACATTTGGAAAAAATATGAGGCTTTTGGAGGATTTGCATGTTCACATTCTTGCTTCTCGCGAATCCTGTTCAGGGAGGGTCAGGCGGGTTATCCTAGAACACCTACGAGTTGAGAACCTTACTCTATTTCTAAAGAGGTTGACTGAGCCACTGCACATGCTGCCTAAGGTTAGAATATATTTTGCTCGTCTGATTTTAGTTATAGGAATGGATGAAGCTGTTAAAATGGTGGTCGAATTTATGAGTCTATATTCAATCAGTCAGGAGGATTTTGATACTGTTCTTGAGTTGTCAAAATTTCAGGTATTGACATCTACATTTTGTTTAGGTCGTAAGAATCCATTGGATGGTGTAGCCCCTGCAGTCAAAGCTGCTCTGACAAAGGCATACAAAGAAGCGAGCAAGACACACATGGTGCGGGCTGCAGATCTTATTACACTTCCTGGAATGAAAAAAGCCCCTAAGAAGCGAATTGCAGCGATTCTAGAACCGACTGAGGATACAGTTGAAGGTGCTGGTGGAGACACATTGGCAGAAAGAATGCAAGTGCAATTGGATTTGAAGGGGGTGGAAAATTCAAGCGCCAAGAAATCCGGTGGCAGGGGACGAGGAGGTAGAAGTTCCCAGGCTTCAGAGAAAAAAGGTGGTCGAGGTTCAGGATCCGCCACAAAGAGGAAAAGATGA 3207 42.78 MTWHNTFVPHPAFTRQNPRAIAISFTRRPPAIFDQDELKELSRTVNLTVEWRFLPFALRLPLYNGELGFSADIRKWFMKAHDKENGSGSKKAKPAPSNLDQSASAELQSGKTTGHEKFLLHWHGFCGPSGGESTGRRITSKYFASEKQKSKDTKETEETPIKRKSPQDTKESPAKRKFQKDNEESLKASPLKKSNKIDNSDDDAVFSSSGKNISEVTPNKKLKSGSGKGITQKPVEIEVSDDEETKGTDSSLKPSGRGRGGRGSSAATVGGRGRGGGRGGFMNFGERKDPPHKGEKEVPEGALDCLAGLTFVISGTLDSLEREEAEDLIKRHGGRVTGSNYLLCDEDIGGRKSSKAKELGTGFLTEDGLFDMIRSSGKKAPPRQDPKKSVVKSSVESPTGKKFQKVQEKPRKDLTAGASPAKQKCRTAEFSNLIWTEKYRPKVPNDIIGNQSLVKQLHDWLAHWNKNFLDVGSKKKVKKLNDSSAKKAVLLCGGPGIGKTTSAKLVSQMLGFEAIEVNASDNRGKSDAKIQKGIGGSNANSIKELISNESLHFRMDQPKHPKTVLIMDEVDGMSAGDRGGVADLIASIKMSKIPIICICNDRYSQKLKSLVNYCLILSYRKPTKQQMAKRLIQVANAEGLQVNEIALEELAERVNGDMRMALNQLQYLSLSMSVIKYDDIRQRLLSSMKDEDISPFTAVDKLFGFNSGKLRMDERIDLSMSDLDLVPLLIQENYINYRPSAVSKDDNGIKRMDLIARTAESIADGDIINVQIRRHRQWQLSQSSCIASCVIPASLLHGQRETLEQVMKFCTCKFISMSEPSSHLNGERNFNRFGAWLGKNSTFGKNMRLLEDLHVHILASRESCSGRVRRVILEHLRVENLTLFLKRLTEPLHMLPKVRIYFARLILVIGMDEAVKMVVEFMSLYSISQEDFDTVLELSKFQVLTSTFCLGRKNPLDGVAPAVKAALTKAYKEASKTHMVRAADLITLPGMKKAPKKRIAAILEPTEDTVEGAGGDTLAERMQVQLDLKGVENSSAKKSGGRGRGGRSSQASEKKGGRGSGSATKRKR 1068
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
10 15509515 15527559 - Lsi10G011270.1 Lsi10g01127 672684

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi10g01127 1068 Gene3D - 622 692 - -
Lsi10g01127 1068 PANTHER CHROMOSOME TRANSMISSION FIDELITY FACTOR 18 131 1050 - -
Lsi10g01127 1068 SUPERFAMILY post-AAA+ oligomerization domain-like 693 858 IPR008921 GO:0003677|GO:0006260
Lsi10g01127 1068 MobiDBLite consensus disorder prediction 201 226 - -
Lsi10g01127 1068 MobiDBLite consensus disorder prediction 374 421 - -
Lsi10g01127 1068 Gene3D BRCT domain 278 375 IPR036420 -
Lsi10g01127 1068 MobiDBLite consensus disorder prediction 285 300 - -
Lsi10g01127 1068 PIRSF RFC1 69 1068 IPR012178 GO:0003689|GO:0005524|GO:0005663|GO:0006260|GO:0006281
Lsi10g01127 1068 ProSiteProfiles BRCT domain profile. 301 375 IPR001357 -
Lsi10g01127 1068 MobiDBLite consensus disorder prediction 91 108 - -
Lsi10g01127 1068 SMART AAA_5 485 623 IPR003593 -
Lsi10g01127 1068 MobiDBLite consensus disorder prediction 235 250 - -
Lsi10g01127 1068 MobiDBLite consensus disorder prediction 83 108 - -
Lsi10g01127 1068 SUPERFAMILY BRCT domain 301 375 IPR036420 -
Lsi10g01127 1068 Gene3D - 694 806 - -
Lsi10g01127 1068 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 433 682 IPR027417 -
Lsi10g01127 1068 MobiDBLite consensus disorder prediction 1027 1068 - -
Lsi10g01127 1068 CDD HLD_clamp_RFC 622 680 - -
Lsi10g01127 1068 MobiDBLite consensus disorder prediction 141 301 - -
Lsi10g01127 1068 Gene3D - 433 621 IPR027417 -
Lsi10g01127 1068 Pfam ATPase family associated with various cellular activities (AAA) 489 601 IPR003959 GO:0005524|GO:0016887
Lsi10g01127 1068 MobiDBLite consensus disorder prediction 142 200 - -
Lsi10g01127 1068 CDD BRCT_RFC1 301 374 - -
Lsi10g01127 1068 CDD AAA 474 615 - -
Lsi10g01127 1068 PANTHER REPLICATION FACTOR C SUBUNIT 1 131 1050 - -
Lsi10g01127 1068 Pfam Replication factor RFC1 C terminal domain 762 972 IPR013725 GO:0003689|GO:0005524|GO:0005663|GO:0006260
Lsi10g01127 1068 Pfam BRCA1 C Terminus (BRCT) domain 304 373 IPR001357 -
Lsi10g01127 1068 SMART BRCT_7 303 376 IPR001357 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi10g01127 K10754 RFC1; replication factor C subunit 1 - csv:101204361 1565.44
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi01g00582 Lsi-Chr1:4641723 Lsi10g01127 Lsi-Chr10:15509515 8.36E-06 dispersed
Lsi04g02385 Lsi-Chr4:30997873 Lsi10g01127 Lsi-Chr10:15509515 1.58E-10 dispersed
Lsi05g01823 Lsi-Chr5:25505730 Lsi10g01127 Lsi-Chr10:15509515 1.96E-17 dispersed
Lsi08g00447 Lsi-Chr8:12109074 Lsi10g01127 Lsi-Chr10:15509515 1.39E-12 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
OG0009501 1 4 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 33
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi10g01127 Lsi_Chr10 FPKM 32.455898 30.790451 40.501392 38.992249 37.022331 35.898396 37.996418 39.660904 38.115433 38.848515