Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cla05g00464 ATGGAGCCAAACAGTATTCTACAAGAGAAAGTCAAGAAGGTTCGATCCGCGGTCGGGCCCGACTTGCCGGATTCCTTCATTCAACGGACGCTGTTGACAAGCGACGGTGACATAGACGAGGCTATTAAATACATTCTTCAAAACCCTGGGTTTTTGGCCAGGCCATTGTCTGTTGTACGGACGGTCACTAGCACCGGTGCTCGAGTTTCAACACAGTTCATGCAGGATGATTCTATGGAGTCCGAGGAGGTAGCGAAACCGACGGTACAAGTCAAGGAGGAATCGGGTTTCGGGTTTGAAGATCAAGGCATAGAGAACAGGGGAGTGAGCTCGGATCGTCCAGAGGGTTTGCCGAAGGCCATCGGAACGTGGGAAACGAGATTCGATGAGTTTCTTAAACAGACAAACACGAAAGTGATGAGCGATGAGAAGTATAGCAAGATCCCTGAGGGAAATCCGGCTGCGAAGATTCAAGTAAAGGAGGAAGCAGTTGAGACGAATGCACAACCTGGTGCTAACACAAATGTGAGAGTAAAAGAAGAACCAGATTTGGAGTTTAAGAACAGAGTATTTGAAAGAGAAGCAAGCTCTAGGACTGAATATTTCGCAAAGTCGGTTTCAAGTACACCAAGAACGAATTCGGTGGGTTCAGATGGCATGCAGAAGAATGGGACCTTGTCTAATGATGGGAGGTGCAAGATTGACGATGGGGATTTCCCTATTGAGCCTGATTGGTTTTTGGTGGGAAGGACAGTGGTCACAGCCATGTCCACCACGAAAGGGGATAAATTAGCAGATAATGAACTAGTTAATTTTGCATTTCCTTCTTCAAATTCAAGATTCAATGCGCAATGGATTGTTCGCTTCTCAACTAAAAGAAGTGGAGAGATTGGTCGCTTACCAATGGAGTGGGCAAAATGTGTAGTTCCACTTGTCGACTCCCGGAAAGTTAAAATTCTTGGACGGTGTATAGCCGCACCAGGAAACCTTCACATAATGCAAGAAATCCTTCTATACGTTAGCTTTTATATCAATAGTTCGGTATTCTCGGACATTGATACAGTTACATGGAAGTTGGAGGCTACACACATTGACTCTACAATTTATCCTCTTCTTACCCTTTTCGAATTACTGCAAATCACACCGTACCAGAAGGCTGAATTTACACCAGAAGAACTTGATTCAAGGAAGCGTCTGCTGAAGCTTGAAGATGATCCTGATGAAGCGGCATCAATGCTACCTATTGTGAAGCGGAGAAAGGGTTTCCAGCAATTTGCCGATCAAAACAAAGATGACCAAACTCTTAATGAATCATCACTGACTAAGCTTGTTGGTGCTTCAGATATGTATAATTTGGATGAAATGGAGCCTCCACGTACACTGACATGTGATCTTAGGCCTTATCAGAAGCAAGCTCTATTCTGGATGTCTGAGTTAGAGAAGGGGATCGATGTTGAGAAGGCTGCACAAACCCTTCATCCATGCTGGTCAGCCTATCGCATCTGTGATGAGAGAGCCTCCTCAATCTATGTAAACATTTTCTCTGGGGAATCAACTACAAAATTCCCAACTGCAACACAGATGGCAAGAGGAGGAATTCTTGCGGATGCAATGGGGCTTGGAAAGACCGTTATGACAATTGCTCTTATACTTGCGAGGATGGGCAAAGGATGCCCTAATGACCAAAAGCCAGCAGTGAATAAGAATGTTACCACAGAGACAAAAAGTCAGAAATCCACAACTAAAGCTAGGGGTGGGACCCTTATTGTATGTCCAATGGCTTTGCTGGGCCAATGGAAGGAGGAGCTTGAAATACATTCAGAGCCTGGAAGTATTTCCATATTTGTTCACTATGGTGGTGATAGAACCAACAATCCAGAGGTGCTGTCAGGATATGATGTTGTCTTGACAACGTATGGTGTCCTAACATCGGCCTATAAGAGTGATGGAGAGTTCAGTATTTACCACAGAGTTGATTGGTACAGAGTGGTGCTAGATGAAGCCCATACAATTAAATCATCAAAGACACAAACTGCCCAGGCTGCTTTTACACTGAACTCATATTGCCGGTGGTGTCTTACTGGAACCCCCCTCCAGAATAACTTGGAAGACCTTTTCAGCCTCATATGCTTCTTGCGTGTGGAACCATGGTGCAATTGGGCATGGTGGAACAAGTTGATTCAAAGGCCTTATGAAAATGGTGATCCTAGAGGCTTGAGATTGATCAAGGCTATCCTGAGGCCACTTATGTTGAGGAGAACTAAAGATACAAAGGATGCAGAAGGAAGGCCTATTCTTGTTCTCCCTCCTACTGATATTCAAACCGTCACATGTGGACAGTCTAAGGCTGAACGTGATTTTTATGATGCACTTTTTAAGAGATCAAAAGTCCAGTTTGATCAGTTTGTAGCACAAGGAAAGGTTCTCCACAACTATGCAAACATCCTCGAGCTCTTGCTTCGACTTAGGCAGTGTTGCAACCACCCATTTCTTGTAATGAGCCGAGGAGATTCACAACAATATGCCAACTTGAACAAGCTTGCAAGAAAGTTCCTTGAATCCAACAGTAATTCTACAACAATGGAGCAGGCTGCACCGACCAGAGCATATGTTGAAGAGGTAGTTGAGTGCATTGGGCGAGGTGAAAACACCGAGTGCCCAATATGTATGGAGTTTGCCGACGATGCAGTGCTCACCCCATGTGCTCACAGGATGTGTAGGGAGTGTCTCCTCTCAAGCTGGAGGACCCCGACATGTGGGCTCTGCCCAATTTGTAGGCAATTGGTGAAGAAAACTGACCTCATAACATGTCCATCAGAAAACCCTTTTCGTGTGGATGTTGAGAAGAACTGGAAGGAGTCTTCAAAAGTATCAAAACTGCTGGAATGCTTGGAACAAATTAATCAGTCGGGTTCTGGTGAAAAGAGCATTGTTTTTAGCCAGTGGACTACATTTTTTGATCTCTTAGAGATTCCCTTGAAGAGGAAACGAATTGGATTCTTCAGATTCGATGGGAAACTGTCGCAGAAGCATAGGGAAAGAGTTCTAAAAGAGTTCAGTGAAAGCAAGGAGAAAAAGGTGATGCTAATTTCTCTAAAAGCTGGTGGGGTTGGATTGAATCTAACCGCAGCTTCAAATGTCTTCATAATGGATCCATGGTGGAATCCTGCGGTTGAGGAACAAGCAATCATGAGGATCCATCGTATTGGTCAGAAGAGGACAGTCCGTGTGAGAAGATTCATTGTCAAGGACACCGTGGAGGAACGCATGCAACAAGTTCAGGCCAGAAAGCAGCGGATGATCGCCGGTGCCCTCACTGACGAGGAAGTTCGAACGGCCAGGATTGAAGAGCTCAAGATGCTCTTTAGATAG 3372 44.87 MEPNSILQEKVKKVRSAVGPDLPDSFIQRTLLTSDGDIDEAIKYILQNPGFLARPLSVVRTVTSTGARVSTQFMQDDSMESEEVAKPTVQVKEESGFGFEDQGIENRGVSSDRPEGLPKAIGTWETRFDEFLKQTNTKVMSDEKYSKIPEGNPAAKIQVKEEAVETNAQPGANTNVRVKEEPDLEFKNRVFEREASSRTEYFAKSVSSTPRTNSVGSDGMQKNGTLSNDGRCKIDDGDFPIEPDWFLVGRTVVTAMSTTKGDKLADNELVNFAFPSSNSRFNAQWIVRFSTKRSGEIGRLPMEWAKCVVPLVDSRKVKILGRCIAAPGNLHIMQEILLYVSFYINSSVFSDIDTVTWKLEATHIDSTIYPLLTLFELLQITPYQKAEFTPEELDSRKRLLKLEDDPDEAASMLPIVKRRKGFQQFADQNKDDQTLNESSLTKLVGASDMYNLDEMEPPRTLTCDLRPYQKQALFWMSELEKGIDVEKAAQTLHPCWSAYRICDERASSIYVNIFSGESTTKFPTATQMARGGILADAMGLGKTVMTIALILARMGKGCPNDQKPAVNKNVTTETKSQKSTTKARGGTLIVCPMALLGQWKEELEIHSEPGSISIFVHYGGDRTNNPEVLSGYDVVLTTYGVLTSAYKSDGEFSIYHRVDWYRVVLDEAHTIKSSKTQTAQAAFTLNSYCRWCLTGTPLQNNLEDLFSLICFLRVEPWCNWAWWNKLIQRPYENGDPRGLRLIKAILRPLMLRRTKDTKDAEGRPILVLPPTDIQTVTCGQSKAERDFYDALFKRSKVQFDQFVAQGKVLHNYANILELLLRLRQCCNHPFLVMSRGDSQQYANLNKLARKFLESNSNSTTMEQAAPTRAYVEEVVECIGRGENTECPICMEFADDAVLTPCAHRMCRECLLSSWRTPTCGLCPICRQLVKKTDLITCPSENPFRVDVEKNWKESSKVSKLLECLEQINQSGSGEKSIVFSQWTTFFDLLEIPLKRKRIGFFRFDGKLSQKHRERVLKEFSESKEKKVMLISLKAGGVGLNLTAASNVFIMDPWWNPAVEEQAIMRIHRIGQKRTVRVRRFIVKDTVEERMQQVQARKQRMIAGALTDEEVRTARIEELKMLFR 1123
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
5 4194947 4200711 + ClCG05G004470.1 Cla05g00464 271954

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cla05g00464 1123 SMART ultradead3 461 732 IPR014001 -
Cla05g00464 1123 PANTHER TRANSCRIPTION TERMINATION FACTOR 2-RELATED 367 1123 - -
Cla05g00464 1123 SMART ring_2 886 925 IPR001841 -
Cla05g00464 1123 SMART HIRAN_2 248 344 IPR014905 GO:0003676|GO:0008270|GO:0016818
Cla05g00464 1123 SUPERFAMILY RING/U-box 878 931 - -
Cla05g00464 1123 Gene3D - 519 754 IPR038718 -
Cla05g00464 1123 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 451 753 IPR027417 -
Cla05g00464 1123 SUPERFAMILY P-loop containing nucleoside triphosphate hydrolases 766 1113 IPR027417 -
Cla05g00464 1123 Pfam HIRAN domain 249 340 IPR014905 GO:0003676|GO:0008270|GO:0016818
Cla05g00464 1123 Gene3D - 769 1123 IPR027417 -
Cla05g00464 1123 ProSiteProfiles Zinc finger RING-type profile. 886 926 IPR001841 -
Cla05g00464 1123 ProSiteProfiles CUE domain profile. 6 50 IPR003892 GO:0043130
Cla05g00464 1123 ProSiteProfiles Superfamilies 1 and 2 helicase C-terminal domain profile. 956 1123 IPR001650 -
Cla05g00464 1123 Gene3D Zinc/RING finger domain, C3HC4 (zinc finger) 880 935 IPR013083 -
Cla05g00464 1123 CDD RING-HC 886 925 - -
Cla05g00464 1123 Pfam Helicase conserved C-terminal domain 959 1070 IPR001650 -
Cla05g00464 1123 ProSitePatterns Zinc finger RING-type signature. 901 910 IPR017907 -
Cla05g00464 1123 Pfam Zinc finger, C3HC4 type (RING finger) 883 931 - -
Cla05g00464 1123 SMART helicmild6 987 1070 IPR001650 -
Cla05g00464 1123 CDD CUE 20 46 - -
Cla05g00464 1123 Pfam SNF2-related domain 468 831 IPR000330 GO:0005524|GO:0140658
Cla05g00464 1123 MobiDBLite consensus disorder prediction 202 228 - -
Cla05g00464 1123 PANTHER DNA REPAIR PROTEIN RAD5B 367 1123 - -
Cla05g00464 1123 CDD SF2_C_SNF 954 1081 - -
Cla05g00464 1123 CDD DEXDc_SHPRH-like 465 753 - -
Cla05g00464 1123 ProSiteProfiles Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. 523 715 IPR014001 -
Cla05g00464 1123 MobiDBLite consensus disorder prediction 202 229 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cla05g00464 K15505 RAD5; DNA repair protein RAD5 [EC:5.6.2.-] - csv:101214691 1986.46
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cla01g01264 Cla-Chr1:25693119 Cla05g00464 Cla-Chr5:4194947 0 dispersed
Cla01g02229 Cla-Chr1:36267894 Cla05g00464 Cla-Chr5:4194947 1.31E-100 dispersed
Cla02g00868 Cla-Chr2:12217476 Cla05g00464 Cla-Chr5:4194947 1.88E-16 dispersed
Cla05g00464 Cla-Chr5:4194947 Cla11g00538 Cla-Chr11:6120419 2.55E-11 dispersed
Cla05g02678 Cla-Chr5:37959161 Cla05g00464 Cla-Chr5:4194947 3.02E-06 dispersed
Cla05g00464 Cla-Chr5:4194947 Cla10g01660 Cla-Chr10:32322381 1.19E-18 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
Vvi5g647 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Cone7ag0310 Cone4ag0312 Lsi05g01699 . . Cme06g00516 . . . . . . . . . . . . . . . . . . . . . . . . Cla05g00464 Cam05g0505 Cec05g0518 Cco05g0519 Clacu05g0506 Cmu05g0482 Cre05g0546 . Csa03g01237 Chy06g00490 .
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Cla02g00868 . 93 887 RAD5/RAD16-like Gene Family AT1G05120 59.4 2.4e-270 928.7
Cla01g02229 . 328 1271 RAD5/RAD16-like Gene Family AT1G11100 52.8 1.6e-244 843.2
Cla01g00784 . 230 974 RAD5/RAD16-like Gene Family AT1G11100 50.7 1.6e-191 667.2
Cla01g00784 . 11 908 RAD5/RAD16-like Gene Family AT1G50410 53.7 1.7e-244 842.8
Cla01g02229 . 441 1172 RAD5/RAD16-like Gene Family AT1G50410 50.6 1.1e-190 664.1
Cla01g02229 . 432 1271 RAD5/RAD16-like Gene Family AT1G61140 61.3 1.6e-271 932.9
Cla01g00784 . 195 974 RAD5/RAD16-like Gene Family AT1G61140 53.8 4.0e-214 742.3
Cla01g01264 . 1 1039 RAD5/RAD16-like Gene Family AT5G22750 70.5 0.0e+00 1450.6
Cla05g00464 . 244 1122 RAD5/RAD16-like Gene Family AT5G22750 56.0 1.1e-295 1013.1
Cla05g00464 . 233 1123 RAD5/RAD16-like Gene Family AT5G43530 72.0 0.0e+00 1320.8
Cla01g01264 . 128 1038 RAD5/RAD16-like Gene Family AT5G43530 54.8 4.5e-286 981.5
       

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
OG0014742 0 0 0 0 0 1 0 1 1 1 1 1 0 1 1 0 1 0 0 1 1 1 1 0 1 1 1 1 1 1 19
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
61010 PF00176 SNF2_N 2.70E-81 CL0023 Cla TR
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cla05g00464 Cla_Chr05 FPKM 7.682453 6.845514 3.777925 4.649585 7.160252 6.705731 6.816227 3.418109 2.461812 3.003345