Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cla11g00142 ATGCCGGTGCATCTCACACCCAATGCAATCTCTGCCATTGTCGCTGGTGACGTTAATTCCAAGCCTCTGGTGCAGGTCCTAGATATCAAGCTGATTGGTAACGCGCAGGAGAGGTACAGCCTCTTGATCTCCGATGCGGTTTCTGCTGAGCAGGCTATGCTCGCAACTCAGCTTAATGATATTGTTAAGACTGGACGAGTCAAGAAAGGATCCGTTATCCAGTTGATCGATTATGTCTGCAGTCCCATCAAGAACCGCAAGATTATTGTTGTGCTCTGCCTGGAAACTATTATATTGGATTGTGAGATAATCGGGAATCCAAAATCATCTGCTCAATCAGAGAATTTTGCACAAAAGGCAACGCGATCTGGAAATTTAGAGCAGCCTGCCAATGGTAATGGTCATTTGGGTGCCAGAAATCCAGTTCAGGATGTGCAGAGCTTCCAAGCTACAGTTCAACCTCCATATCAGCCACCTCCAAATTATAAAAATCACGGTGCAATCATTAAGAATGAGGCACCGGCTCGTATAATTCCCATAGCTGCGCTGAATCCTTATCAGGGACGATGGGCTATAAAAGCAAGAGTTACTGCAAAGGGTGATCTCCGTCGCTATAATAATGCGAAAGGAGATGGTAAAGTTTTCTCTTTTGACCTCCTTGATTCTGATGGAGGAGAGATACGTGTGACTTGCTTCAATGCTGTTGTGGATCGTTTCTACGAGGTCATAGAAGTTGGTAAAGTCTACATGATTTCTAAAGGTAGCCTAAAACCGGCGCGGAAGGATTTCAATCATCTAAAGAATGAATGGGAGGTTTTCTTGGAGGCATCTTCCACTGTGGAAGTTTGCCCAGATGAAGATGATACCATACCAAGACAGCAGTTCTCTTTTAGACCTATCAGTGATATTGAGAATGCTGAAACCAACTCTATTCTGGACGTTATTGGTATTGTAACATCTGTCAATCCATCAATTCCTGTTTTGAGAAAAAATGGTATGGAAACTCAAAGAAGAGTTGTGAATTTGAAGGATGCGTCTGGCAGGAGTATTGAGCTGACACTCTGGGGGGATTTTTGCAACAAAGAAGGTCAAAAATTGCAAGAAATAATTTACTCGGGCCTTTCTCCAGTGTTAGCTGTGAAATCTGGGAAGGTAAGTGATTTCACTGGGAAATCCATTGGGACAATTTCTTCTACTCAGCTTTTCATAAATCCAGATCTTTCTGAGGCTCACATCTTGAGGAACTGGTACGATGGTGGTGGGAAGAATACTACTTCTCTATCTATTTCTAAAGAAATCATGCCAGGATCTGCCAAGAATGAGATTCGGAAGACTGTGTCTCAGATTAAAGATGAAGGACTTGGCAGAGCTGATAAGCCAGATTGGATAACGGTGAAAGCAACAATATCCTTTATCAAAACAGATTCTTTCTGCTACACAGCATGTCCATTAATGATCGGAGATCGACAATGCAACAAGAAGGTGACTAGATCAGGAAACTCAAAGTGGCTGTGTGACAGGTGCAATCAAGAATTTGAGGATTGCGATTATAGATATCTTCTTCAAGCCCAAATCCAAGATCATACTGGATTGACATGGGTGACAGCCTTCCAGGAAACTGGTGAAGAGATTCTGGGTGTTTCAGCCAAGGAGTTGTACATGTTGAAGTATGAAGAGCAAGACGATGTCAAGCTCAAAATTAAGGAGGAGTCGTATGGGGATGAACAGAGGGTGAAAAATACTGTAGTCAAGGCAGATAAGTGTGTGCTTTTCTCGGTTGAATGCCGTGGAGGACTTCGAGCACATCAAGAAGCTCAAGTCCGCTTGACGGGATCGAAATTGGAGACGCCGATAACTGCACCCAAGATAGCAGTGACGACTACTCCACCGGCGGCAATGCTGAGCAAGAAATTCTTTAGAGAAGGACTAACTCCAGGCCCGGCAGCTTCAGCCACCTCAGGAAGCACCATGGAAGCCGTCAGTGCAGTTGCAGCGAGTCCAGCAACTGCCTTCTCCTTCAAAGAAGCTCGCACTTGA 2037 44.28 MPVHLTPNAISAIVAGDVNSKPLVQVLDIKLIGNAQERYSLLISDAVSAEQAMLATQLNDIVKTGRVKKGSVIQLIDYVCSPIKNRKIIVVLCLETIILDCEIIGNPKSSAQSENFAQKATRSGNLEQPANGNGHLGARNPVQDVQSFQATVQPPYQPPPNYKNHGAIIKNEAPARIIPIAALNPYQGRWAIKARVTAKGDLRRYNNAKGDGKVFSFDLLDSDGGEIRVTCFNAVVDRFYEVIEVGKVYMISKGSLKPARKDFNHLKNEWEVFLEASSTVEVCPDEDDTIPRQQFSFRPISDIENAETNSILDVIGIVTSVNPSIPVLRKNGMETQRRVVNLKDASGRSIELTLWGDFCNKEGQKLQEIIYSGLSPVLAVKSGKVSDFTGKSIGTISSTQLFINPDLSEAHILRNWYDGGGKNTTSLSISKEIMPGSAKNEIRKTVSQIKDEGLGRADKPDWITVKATISFIKTDSFCYTACPLMIGDRQCNKKVTRSGNSKWLCDRCNQEFEDCDYRYLLQAQIQDHTGLTWVTAFQETGEEILGVSAKELYMLKYEEQDDVKLKIKEESYGDEQRVKNTVVKADKCVLFSVECRGGLRAHQEAQVRLTGSKLETPITAPKIAVTTTPPAAMLSKKFFREGLTPGPAASATSGSTMEAVSAVAASPATAFSFKEART 678
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
11 1729656 1734497 + ClCG11G001530.1 Cla11g00142 283964

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cla11g00142 678 SUPERFAMILY Nucleic acid-binding proteins 176 290 IPR012340 -
Cla11g00142 678 CDD RPA1_DBD_B 311 418 - -
Cla11g00142 678 CDD RPA1_DBD_A 179 281 - -
Cla11g00142 678 Gene3D - 289 429 IPR012340 -
Cla11g00142 678 PANTHER REPLICATION PROTEIN A 70 KDA DNA-BINDING SUBUNIT A 2 594 - -
Cla11g00142 678 Pfam OB-fold nucleic acid binding domain 191 262 IPR004365 GO:0003676
Cla11g00142 678 Pfam Replication protein A OB domain 300 404 IPR031657 -
Cla11g00142 678 Gene3D - 176 286 IPR012340 -
Cla11g00142 678 TIGRFAM rpa1: replication factor-a protein 1 (rpa1) 4 587 IPR004591 GO:0003677|GO:0005634|GO:0006260|GO:0006281|GO:0006310
Cla11g00142 678 SUPERFAMILY Nucleic acid-binding proteins 294 424 IPR012340 -
Cla11g00142 678 SUPERFAMILY Nucleic acid-binding proteins 443 586 IPR012340 -
Cla11g00142 678 CDD RPA1N 9 98 IPR007199 GO:0003677|GO:0005634|GO:0006260
Cla11g00142 678 Pfam Replication factor-A protein 1, N-terminal domain 5 97 IPR007199 GO:0003677|GO:0005634|GO:0006260
Cla11g00142 678 PANTHER REPLICATION FACTOR A 1, RFA1 2 594 IPR004591 GO:0003677|GO:0005634|GO:0006260|GO:0006281|GO:0006310
Cla11g00142 678 Pfam Replication factor-A C terminal domain 462 587 IPR013955 -
Cla11g00142 678 Gene3D - 3 111 IPR012340 -
Cla11g00142 678 SUPERFAMILY Nucleic acid-binding proteins 1 106 IPR012340 -
Cla11g00142 678 Gene3D - 430 596 IPR012340 -
Cla11g00142 678 CDD RPA1_DBD_C 446 587 IPR013955 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cla11g00142 K07466 RFA1, RPA1, rpa; replication factor A1 - csv:101207583 1119.76
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cla06g01537 Cla-Chr6:28963821 Cla11g00142 Cla-Chr11:1729656 6.40E-90 dispersed
Cla10g00108 Cla-Chr10:1056657 Cla11g00142 Cla-Chr11:1729656 1.25E-20 dispersed
       

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
Vvi11g104 . Blo16g00969 . Bda11g01026 . . . . . . . . . . . . . . . . . . . . Cla11g00142 Cam11g0164 Cec11g0165 Cco11g0176 Clacu11g0299 Cmu11g0152 Cre11g0650 . . . . . Csa02g00027 Chy05g01462 . . . . . . Bpe13g01237 . Bma06g00893 Sed04g0901 . . . . . . . . Bhi06g01596 Tan08g0026 Cmetu06g1804 . Hepe08g2687 . . . . . . . . . Lsi11g00167 . . Cme05g02064
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Cla08g00013 . 1 94 Core DNA Replication Machinery Family AT4G14700 75.5 1.5e-37 155.2
Cla08g00013 . 1 94 Core DNA Replication Machinery Family AT4G12620 78.7 2.4e-38 157.9
Cla08g01551 . 2 390 Core DNA Replication Machinery Family AT2G37560 60.7 1.9e-138 489.2
Cla07g00440 . 9 451 Core DNA Replication Machinery Family AT2G01120 55.2 2.0e-129 459.5
Cla06g00340 . 89 622 Core DNA Replication Machinery Family AT4G29910 58.2 9.2e-175 610.5
Cla11g00892 . 1 283 Core DNA Replication Machinery Family AT1G26840 66.1 4.0e-94 341.7
Cla09g02206 . 68 839 Core DNA Replication Machinery Family AT1G79150 57.7 1.4e-235 813.1
Cla10g01241 . 8 946 Core DNA Replication Machinery Family AT1G44900 75.0 0.0e+00 1346.6
Cla01g02393 . 83 595 Core DNA Replication Machinery Family AT5G46280 84.1 1.5e-249 859.0
Cla02g00495 . 1 845 Core DNA Replication Machinery Family AT2G16440 76.2 0.0e+00 1153.7
Cla11g00330 . 963 1697 Core DNA Replication Machinery Family AT2G07690 78.4 0.0e+00 1112.4
Cla01g02533 . 7 869 Core DNA Replication Machinery Family AT5G44635 65.0 0.0e+00 1080.1
Cla09g00472 . 45 763 Core DNA Replication Machinery Family AT4G02060 85.3 0.0e+00 1219.9
Cla02g01918 . 55 521 Core DNA Replication Machinery Family AT2G29680 61.9 5.6e-163 571.2
Cla02g01918 . 37 482 Core DNA Replication Machinery Family AT1G07270 58.8 2.7e-143 505.8
Cla09g00820 . 323 915 Core DNA Replication Machinery Family AT3G25100 76.2 1.2e-257 885.9
Cla10g01954 . 12 826 Core DNA Replication Machinery Family AT3G09660 69.0 2.4e-309 1058.1
Cla09g01540 . 9 635 Core DNA Replication Machinery Family AT2G14050 79.5 4.4e-290 993.8
Cla09g01539 . 19 120 Core DNA Replication Machinery Family AT2G14050 74.5 2.6e-40 164.1
Cla02g01165 . 1909 2314 Core DNA Replication Machinery Family AT2G20980 51.4 6.2e-101 364.8
Cla09g00243 CCT,ECH 1 192 Core DNA Replication Machinery Family AT1G80190 67.5 1.1e-72 270.0
Cla11g00591 . 1 184 Core DNA Replication Machinery Family AT1G19080 68.5 2.0e-70 262.3
Cla11g00591 . 1 184 Core DNA Replication Machinery Family AT3G55490 68.5 2.0e-70 262.3
Cla05g00156 . 15 164 Core DNA Replication Machinery Family AT5G49010 65.3 1.6e-49 193.0
Cla02g01214 . 1 1546 Core DNA Replication Machinery Family AT5G67100 60.7 0.0e+00 1769.2
Cla04g01144 . 99 694 Core DNA Replication Machinery Family AT1G67630 54.7 5.5e-189 657.9
Cla06g00192 . 363 763 Core DNA Replication Machinery Family AT1G67320 65.3 3.5e-170 595.1
Cla08g00153 . 7 430 Core DNA Replication Machinery Family AT5G41880 65.5 1.6e-169 592.8
Cla01g01486 . 1 1033 Core DNA Replication Machinery Family AT5G63960 78.5 0.0e+00 1643.6
Cla10g01668 . 29 575 Core DNA Replication Machinery Family AT2G42120 60.5 4.1e-186 647.9
Cla06g00192 . 363 763 Core DNA Replication Machinery Family AT1G67320 65.3 3.5e-170 595.1
Cla01g00535 . 1 127 Core DNA Replication Machinery Family AT1G09815 60.8 3.4e-37 151.4
Cla02g02143 . 1 2095 Core DNA Replication Machinery Family AT1G08260 71.5 0.0e+00 2981.8
Cla09g02001 . 1 1737 Core DNA Replication Machinery Family AT1G08260 66.5 0.0e+00 2332.4
Cla02g02143 . 25 2202 Core DNA Replication Machinery Family AT2G27120 68.1 0.0e+00 2948.3
Cla09g02001 . 1 1844 Core DNA Replication Machinery Family AT2G27120 64.0 0.0e+00 2351.2
Cla04g01237 . 530 980 Core DNA Replication Machinery Family AT5G22110 69.8 1.1e-182 636.7
Cla02g02185 . 228 973 Core DNA Replication Machinery Family AT5G22010 72.2 1.6e-301 1032.3
Cla10g00332 . 1 203 Core DNA Replication Machinery Family AT1G63160 91.6 2.0e-105 379.4
Cla04g00481 . 73 444 Core DNA Replication Machinery Family AT5G27740 76.3 1.1e-162 569.7
Cla11g01553 . 1 334 Core DNA Replication Machinery Family AT1G21690 82.1 4.5e-153 537.7
Cla08g00608 . 1 412 Core DNA Replication Machinery Family AT1G77470 66.4 5.3e-147 517.7
Cla11g00142 . 26 587 Core DNA Replication Machinery Family AT2G06510 67.7 8.4e-238 820.1
Cla10g00108 . 32 703 Core DNA Replication Machinery Family AT2G06510 50.4 1.0e-195 680.2
Cla06g01537 . 1 643 Core DNA Replication Machinery Family AT5G08020 66.1 4.1e-245 844.3
Cla10g00108 . 10 811 Core DNA Replication Machinery Family AT5G45400 50.3 1.8e-227 786.2
Cla06g01537 . 1 638 Core DNA Replication Machinery Family AT5G61000 64.0 3.2e-237 818.1
Cla10g00108 . 5 797 Core DNA Replication Machinery Family AT4G19130 53.7 3.0e-224 775.4
Cla03g01715 . 1 386 Core DNA Replication Machinery Family AT5G26680 78.5 4.7e-176 614.4
Cla07g01491 . 1 328 Core DNA Replication Machinery Family AT2G25100 60.7 1.0e-110 396.7
Cla02g02101 . 44 890 Core DNA Replication Machinery Family AT1G08130 62.1 7.1e-282 966.8
Cla02g02101 . 204 890 Core DNA Replication Machinery Family AT1G49250 60.3 9.2e-227 783.5
       

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
OG0010255 1 3 1 1 1 1 1 1 1 1 1 1 1 0 1 1 1 1 2 1 1 1 1 1 1 1 1 1 1 1 32
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cla11g00142 Cla_Chr11 FPKM 20.207914 21.508247 63.528858 61.509693 149.027573 168.990585 144.53952 42.933498 44.072521 40.604515