Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cmo16g01260 ATGGTAGCATCAATGGCGCCTTTTAAGCTGACGGAAGGAGCCGTGATGGTGATATGCAAGAGAGAATCGTCGGCAGAGACGTTCCAGCCGGTTGTACAAGTAATTGACTTAAAATTGGTTAACACTACGCAACAATCGGGCAGCGAGAGGTATAGATTGTTGCTTTCTGATGGAACTCATTACCAGCAAGGAATGCTGGGCACTCAGCTCAATGGATTGGTTAAGTCCGGGAAGTTACAGAAAGGTTCCATCGTTCAATTGCGGCAGTATGTTTGTAATCCCGTTCAAGAACGCCTAATTATAATCGTCATTGAGTTGGATGTGATAAAGGAAATGTGTGACTTTATTGGCGAGCCTGTTCCAGCAACAAGATCAGTATCAGCCGCATTTAGTGGAAACCCCCAATCCTCTATGGGGGCTTCATCCGGCAGCGGAATACTTGGTAATGTGAATGTATCTGGTGCGTCTTTTGAACAGCCTAAAGTGAATCAATCACAAGTACCGCATGTGGGATCTCATTTTAACACTCCTAATTCTTGGACAAGGTTTAACGGTTCATCTCCTGTAACTGGGTCGTATGGTGATCAGAAGATGGCATACCACAACAATGGATCAGATATTCCCAGGCCACCTCTAAATGCTTATGCTTATGCCCCTCCTCAGCCAATACATCAGCAGCCACCTTCGATGTACAGTAACAGGGGAGGACCGGTAGCAAAAAATGAAGCTCCCCCAAGGATAATGCCTATTACTGCTCTGAACCCTTACCAAGGAAGGTGGACAATAAAGGCTCGAGTTACTTCGAAAGGAGAACTTAGACACTACAATAATCCTCGTGGAGATGGGAAAGTGTTTTCATTTGATCTACTTGATGCATGCGGTGGAGAAATACGAGCAACATGCTTCAATACAGTAGCTGATCAGTTTTACAACCAGATTGAATCTGGTAAAGTATACTTCATTTCTAAAGGAAGCTTGAAACCTGCACAAAAGAACTATAACCATCTCAATAATGACTTTGAAATATTTCTTGAAAACACATCAACAATCCAAGCTTGCTTTGAGGATGACCAATCAATCCCCCATCAGCAGTTTCATTTCCATCACATTAGTGAGATTGAGGGCATGGGTAGCAACAGTGTTGTAGATGTAATTGGTGTTGTTTCTTCCATTAATCCTGCAACGTCTCTCATGAGAAAAAATGGTACCGAGACTCAGAAGAGATCCCTTCAGTTGAAAGATATGTCTGGCCGAAGCGTCGAATTGACTCTTTGGGGAAACTTTTGTCAAGCAGAAGGGCAAAAATTGCAAAACATGTGTGACTCAGGGTTGTTCCCAGTTTTGGCTGTGAAATCTGGTAGAGTGAGCGACTTCAATGGGAAGGCGGTGGGAACCATTTCAACAAGTCAGCTTTTCGTAGAGCCAGATTTCCCCGAGGCTCGTACATTAAGAGGGTGGTTCGAAAAGGAAGGAAGGAGTACTCCTTCTGTCTCCATATCCAGGGAAGTTGCTACCATGGGCAGGACAGATGTCCGTAAGACCATATCCCAAATAAAAGATGAGAGGTTAGGAACCTCTGAGAAGCCAGATTGGATCACTGTTAGTGCAACTGTTTCATTCGTTAAGGTTGATAATTTCTGTTACACAGCATGTCCTATCATGATCGGGGATCGTCAATGCAGCAAAAAGGTTACAAATAACGGAGATGGAAAATGGAGATGCGACCGGTGTGATCAGTCTGTCGACGAATGTGACTACAGGTACATATTGCAGCTGCAAATACAGGATCATACTGGCTTAACTTGGGTGACTGCATTTCAAGAAGGCGGTGAGGAGATCATGGGCTTACCTGCAAAAAGATTGTATTATTTGAAGTACGAAGAACAAGATGATGAAAAATTTGCAGAAATCATCCGTAAGGTTCTTTTTACAAAATTTATTATGAAGTTGAAAGTAAAGGAAGAGACTTTTAGTGATGAACAGAGAGTGAAATCAACTGTCATGAAGGCAGAAAGCATTAACTTTTCGACCGAGTCCAGGTTTCTTCTAGATTTGATGGAAAAGCTCAGGGCAGGGAACACCATACAAAATCCTGGAGTTTTTCGCCCCGGATTGGAGAATATAGGTGGTGGACAGTTCGTGTCGCCCATTCGAAATAGTACCAATAATGTTGGCAGAGAATATGGTACACCGAACCGAGGTGTTCAGTATGGGGACCATCACAACAGTTCTTGGCCTACTCCATCCACACTGCATAACTCGCGCACGTACTGCAACAGCTGTGGGGGATCGGGTCACAGCTCAATGAACTGTCCGAGTATCATCAGCAGCCCTGCACCATCTGTTGGAGGAGGGATGTACTTAAATCGAGTTTCAGGCTCGTCTGGTCGTGACTCTGGTGAATGCTTCAAATGCCATCAAACCGGGCACTGGGCTAGGGATTGCCCTGGTTTGGCCACTTTCCCTCCAGCTTATGGTAACAGTGGCTTCACGGCTAGGTGA 2502 44.48 MVASMAPFKLTEGAVMVICKRESSAETFQPVVQVIDLKLVNTTQQSGSERYRLLLSDGTHYQQGMLGTQLNGLVKSGKLQKGSIVQLRQYVCNPVQERLIIIVIELDVIKEMCDFIGEPVPATRSVSAAFSGNPQSSMGASSGSGILGNVNVSGASFEQPKVNQSQVPHVGSHFNTPNSWTRFNGSSPVTGSYGDQKMAYHNNGSDIPRPPLNAYAYAPPQPIHQQPPSMYSNRGGPVAKNEAPPRIMPITALNPYQGRWTIKARVTSKGELRHYNNPRGDGKVFSFDLLDACGGEIRATCFNTVADQFYNQIESGKVYFISKGSLKPAQKNYNHLNNDFEIFLENTSTIQACFEDDQSIPHQQFHFHHISEIEGMGSNSVVDVIGVVSSINPATSLMRKNGTETQKRSLQLKDMSGRSVELTLWGNFCQAEGQKLQNMCDSGLFPVLAVKSGRVSDFNGKAVGTISTSQLFVEPDFPEARTLRGWFEKEGRSTPSVSISREVATMGRTDVRKTISQIKDERLGTSEKPDWITVSATVSFVKVDNFCYTACPIMIGDRQCSKKVTNNGDGKWRCDRCDQSVDECDYRYILQLQIQDHTGLTWVTAFQEGGEEIMGLPAKRLYYLKYEEQDDEKFAEIIRKVLFTKFIMKLKVKEETFSDEQRVKSTVMKAESINFSTESRFLLDLMEKLRAGNTIQNPGVFRPGLENIGGGQFVSPIRNSTNNVGREYGTPNRGVQYGDHHNSSWPTPSTLHNSRTYCNSCGGSGHSSMNCPSIISSPAPSVGGGMYLNRVSGSSGRDSGECFKCHQTGHWARDCPGLATFPPAYGNSGFTAR 833
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
16 8986534 8989711 - CmoCh16G012600.1 Cmo16g01260 400295

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cmo16g01260 833 SUPERFAMILY Nucleic acid-binding proteins 246 358 IPR012340 -
Cmo16g01260 833 Pfam OB-fold nucleic acid binding domain 260 341 IPR004365 GO:0003676
Cmo16g01260 833 SMART c2hcfinal6 757 773 IPR001878 GO:0003676|GO:0008270
Cmo16g01260 833 SMART c2hcfinal6 801 817 IPR001878 GO:0003676|GO:0008270
Cmo16g01260 833 Gene3D - 359 497 IPR012340 -
Cmo16g01260 833 Gene3D - 498 689 IPR012340 -
Cmo16g01260 833 Gene3D - 246 355 IPR012340 -
Cmo16g01260 833 Gene3D - 8 123 IPR012340 -
Cmo16g01260 833 CDD RPA1_DBD_C 515 688 IPR013955 -
Cmo16g01260 833 CDD RPA1_DBD_B 381 488 - -
Cmo16g01260 833 Pfam Replication protein A OB domain 370 473 IPR031657 -
Cmo16g01260 833 SUPERFAMILY Nucleic acid-binding proteins 512 689 IPR012340 -
Cmo16g01260 833 PANTHER REPLICATION FACTOR A 1, RFA1 6 722 IPR004591 GO:0003677|GO:0005634|GO:0006260|GO:0006281|GO:0006310
Cmo16g01260 833 SUPERFAMILY Nucleic acid-binding proteins 365 493 IPR012340 -
Cmo16g01260 833 CDD RPA1_DBD_A 249 351 - -
Cmo16g01260 833 SUPERFAMILY Nucleic acid-binding proteins 8 117 IPR012340 -
Cmo16g01260 833 MobiDBLite consensus disorder prediction 160 183 - -
Cmo16g01260 833 Gene3D - 753 820 - -
Cmo16g01260 833 Pfam Replication factor-A C terminal domain 531 682 IPR013955 -
Cmo16g01260 833 Pfam Zinc knuckle 801 816 IPR001878 GO:0003676|GO:0008270
Cmo16g01260 833 ProSiteProfiles Zinc finger CCHC-type profile. 802 816 IPR001878 GO:0003676|GO:0008270
Cmo16g01260 833 Pfam Replication factor-A protein 1, N-terminal domain 10 111 IPR007199 GO:0003677|GO:0005634|GO:0006260
Cmo16g01260 833 PANTHER REPLICATION PROTEIN A SUBUNIT 6 722 - -
Cmo16g01260 833 ProSiteProfiles Zinc finger CCHC-type profile. 758 773 IPR001878 GO:0003676|GO:0008270
Cmo16g01260 833 SUPERFAMILY Retrovirus zinc finger-like domains 785 820 IPR036875 GO:0003676|GO:0008270
Cmo16g01260 833 CDD RPA1N 13 110 IPR007199 GO:0003677|GO:0005634|GO:0006260
Cmo16g01260 833 TIGRFAM rpa1: replication factor-a protein 1 (rpa1) 236 688 IPR004591 GO:0003677|GO:0005634|GO:0006260|GO:0006281|GO:0006310
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cmo16g01260 K07466 RFA1, RPA1, rpa; replication factor A1 - csv:101211358 1429.46
       

WGDs- Genes

Select Gene_1 Gene_2 Event_name
Cmo06g00609 Cmo16g01260 CST
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cmo11g00212 Cmo-Chr11:1048642 Cmo16g01260 Cmo-Chr16:8986534 7.51E-87 dispersed
Cmo12g01346 Cmo-Chr12:11641987 Cmo16g01260 Cmo-Chr16:8986534 2.80E-07 dispersed
Cmo16g01260 Cmo-Chr16:8986534 Cmo06g00609 Cmo-Chr6:3004021 0 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
Vvi2g886 . . . . . Bpe07g00251 . . Cmo06g00609 Cmo16g01260 . . . . . Cpe14g01003 . . . . . . . . Cla10g00108 Cam10g0103 Cec10g0110 Cco10g0112 Clacu10g0107 Cmu10g0955 Cre10g0366 . . . . Lsi07g01137 . . Cme06g02413 . . . . . . . Bma12g00253 . . . Cma06g00602 Cma16g01216 Car06g00537 Car16g01142 . . . . . . . . . . . . . . . . . Csa03g00107 Chy06g02198 .
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Cmo09g01339 . 106 797 Core DNA Replication Machinery Family AT4G14700 66.9 2.2e-270 929.1
Cmo09g01339 . 73 797 Core DNA Replication Machinery Family AT4G12620 67.4 2.5e-282 968.8
Cmo12g00468 . 2 361 Core DNA Replication Machinery Family AT2G37560 67.5 7.5e-143 504.2
Cmo02g01001 . 21 361 Core DNA Replication Machinery Family AT5G16690 54.4 1.5e-100 364.8
Cmo04g01157 . 9 418 Core DNA Replication Machinery Family AT2G01120 65.5 1.9e-156 549.7
Cmo17g00416 . 3 520 Core DNA Replication Machinery Family AT4G29910 57.2 1.6e-166 583.6
Cmo05g00872 . 1 183 Core DNA Replication Machinery Family AT1G26840 70.5 3.6e-66 249.2
Cmo06g01695 . 894 1566 Core DNA Replication Machinery Family AT1G79150 50.9 9.1e-195 677.9
Cmo14g01078 . 9 939 Core DNA Replication Machinery Family AT1G44900 75.3 0.0e+00 1339.3
Cmo06g01740 . 1 950 Core DNA Replication Machinery Family AT1G44900 74.2 0.0e+00 1328.2
Cmo07g00117 CST 1 579 Core DNA Replication Machinery Family AT5G46280 80.5 3.0e-266 914.8
Cmo03g01381 CST 1 196 Core DNA Replication Machinery Family AT5G46280 50.6 2.8e-62 237.3
Cmo19g00696 . 1 814 Core DNA Replication Machinery Family AT2G16440 73.5 0.0e+00 1090.1
Cmo11g01110 . 200 882 Core DNA Replication Machinery Family AT2G16440 60.2 2.3e-246 849.4
Cmo12g01194 . 951 1685 Core DNA Replication Machinery Family AT2G07690 78.5 0.0e+00 1115.5
Cmo07g00005 . 528 1322 Core DNA Replication Machinery Family AT5G44635 70.1 0.0e+00 1120.1
Cmo17g01008 . 8 719 Core DNA Replication Machinery Family AT4G02060 85.7 0.0e+00 1220.7
Cmo08g00461 . 11 722 Core DNA Replication Machinery Family AT4G02060 85.5 0.0e+00 1216.4
Cmo20g00379 . 30 518 Core DNA Replication Machinery Family AT2G29680 60.8 6.6e-164 574.7
Cmo20g00379 . 30 479 Core DNA Replication Machinery Family AT1G07270 58.7 7.1e-144 508.1
Cmo08g00224 . 222 814 Core DNA Replication Machinery Family AT3G25100 76.9 8.1e-262 900.2
Cmo17g01242 . 1 593 Core DNA Replication Machinery Family AT3G25100 76.5 2.7e-257 885.2
Cmo06g00348 . 39 872 Core DNA Replication Machinery Family AT3G09660 67.5 3.2e-306 1048.1
Cmo19g00482 . 16 686 Core DNA Replication Machinery Family AT2G14050 64.6 4.4e-245 844.7
Cmo20g00749 . 1 438 Core DNA Replication Machinery Family AT2G20980 50.9 1.9e-110 396.7
Cmo09g00762 . 7 968 Core DNA Replication Machinery Family AT1G77320 50.4 1.3e-259 893.6
Cmo08g00638 . 1 200 Core DNA Replication Machinery Family AT1G80190 66.8 2.3e-75 279.3
Cmo07g01233 . 1 179 Core DNA Replication Machinery Family AT3G12530 58.7 6.7e-56 214.2
Cmo04g03028 . 1 184 Core DNA Replication Machinery Family AT1G19080 64.7 1.1e-63 240.4
Cmo04g03028 . 1 184 Core DNA Replication Machinery Family AT3G55490 64.7 1.1e-63 240.4
Cmo14g02113 . 15 164 Core DNA Replication Machinery Family AT5G49010 66.7 5.8e-52 201.4
Cmo02g00525 . 1 1546 Core DNA Replication Machinery Family AT5G67100 60.4 0.0e+00 1768.4
Cmo18g00706 . 2 610 Core DNA Replication Machinery Family AT1G67630 63.9 1.6e-220 763.1
Cmo08g00172 . 1 447 Core DNA Replication Machinery Family AT1G67320 65.7 2.3e-185 646.0
Cmo09g01248 . 1 450 Core DNA Replication Machinery Family AT5G41880 64.6 2.1e-177 619.4
Cmo07g00846 . 1 1086 Core DNA Replication Machinery Family AT5G63960 81.1 0.0e+00 1808.1
Cmo14g00422 . 1 438 Core DNA Replication Machinery Family AT2G42120 76.5 4.2e-207 718.0
Cmo08g00172 . 1 447 Core DNA Replication Machinery Family AT1G67320 65.7 2.3e-185 646.0
Cmo02g01374 . 1 2094 Core DNA Replication Machinery Family AT1G08260 70.5 0.0e+00 2952.9
Cmo02g01374 . 9 2200 Core DNA Replication Machinery Family AT2G27120 67.4 0.0e+00 2919.8
Cmo01g00788 . 510 1031 Core DNA Replication Machinery Family AT5G22110 65.4 8.1e-191 664.1
Cmo02g01336 . 1 928 Core DNA Replication Machinery Family AT5G22010 62.5 2.2e-303 1038.9
Cmo16g01059 . 3 332 Core DNA Replication Machinery Family AT1G63160 89.7 1.4e-170 596.3
Cmo03g00225 . 1 354 Core DNA Replication Machinery Family AT5G27740 83.3 2.4e-176 615.5
Cmo01g01421 . 1 336 Core DNA Replication Machinery Family AT1G21690 80.1 1.6e-150 529.6
Cmo15g00675 CST 1 363 Core DNA Replication Machinery Family AT1G77470 76.3 7.0e-155 544.3
Cmo04g02487 CST 1 382 Core DNA Replication Machinery Family AT1G77470 70.5 9.2e-147 517.3
Cmo05g01408 . 26 618 Core DNA Replication Machinery Family AT2G06510 69.0 1.2e-252 869.8
Cmo06g00609 CST 34 701 Core DNA Replication Machinery Family AT2G06510 52.1 1.3e-201 700.3
Cmo16g01260 CST 34 686 Core DNA Replication Machinery Family AT2G06510 52.2 5.4e-200 694.9
Cmo11g00212 . 1 623 Core DNA Replication Machinery Family AT5G08020 67.1 1.5e-242 836.3
Cmo06g00609 CST 10 808 Core DNA Replication Machinery Family AT5G45400 51.6 2.4e-230 796.2
Cmo16g01260 CST 10 785 Core DNA Replication Machinery Family AT5G45400 51.4 3.3e-224 775.8
Cmo11g00212 . 1 618 Core DNA Replication Machinery Family AT5G61000 65.0 2.3e-235 812.4
Cmo06g00609 CST 5 822 Core DNA Replication Machinery Family AT4G19130 53.3 7.5e-231 797.7
Cmo16g01260 CST 5 772 Core DNA Replication Machinery Family AT4G19130 54.8 1.3e-227 786.9
Cmo09g00511 CST 1 268 Core DNA Replication Machinery Family AT2G24490 50.2 1.2e-69 260.8
Cmo01g01597 CST 1 167 Core DNA Replication Machinery Family AT2G24490 52.2 3.4e-45 179.5
Cmo11g01256 . 1 172 Core DNA Replication Machinery Family AT5G26680 91.9 4.6e-86 315.8
Cmo11g01257 . 18 183 Core DNA Replication Machinery Family AT5G26680 59.5 5.3e-58 222.6
Cmo14g01511 CST 1 262 Core DNA Replication Machinery Family AT2G25100 66.0 7.0e-99 357.8
Cmo20g00553 . 44 804 Core DNA Replication Machinery Family AT1G08130 68.0 2.9e-291 998.4
Cmo20g00553 . 204 804 Core DNA Replication Machinery Family AT1G49250 68.6 9.6e-240 827.0
       

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
OG0008728 0 2 1 1 1 1 2 1 1 1 1 1 2 1 1 2 1 2 2 1 1 1 1 1 1 1 1 1 1 1 35
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cmo16g01260 Cmo_Chr16 FPKM 3.847783 3.549213 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0