Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g00262 ATGAAGATTTTTGTCAAGACTCTCAAGGGCTCGCACTTCGAAATCGAAGTTCAGCCTGCAGATACGGTCGCTGATGTGAAGAAAAACATAGAAACTGTACAGGGTGCTGATGTTTACCCTGCTGCACAGCAGATGCTTATCCATCAAGGGAAAGTCCTTAAAGATAGCACAACACTGGAGGAAAATAAAGTTGCAGAAAATAGTTTTATTGTAATAATGTTAACAAAGAATAAAAGTTCATCGGGTGGTACATCTTCTACCACACAAGCTGCGCCAGTATCGAAGGCACCACAGAGCACTGCTCCTGCGCCTGCTGCCACTCCAGTATCAACTTCTGAAGTTCCTCTACCAACTTCAGCAGCGCCTGCTACTGTTACTGATTCTTCTCCTCCCGCTCCGGCGCTGGCTCCCGCTCCTGCTCCCGCTCCGGCTGCAGCTCCAGCTCCAGCTCCTGCAACCACTGTTTTGCCGGAATCCGATGTCTACAGCCAAGCAGCTTCTAACCTTGTTGCTGGTAGTAACTTGGAGGAGACTATCCAACAGATTCTTGACATGGGCGAAGGGGTTTGGGACAGGGACACTGTTGTTCGAGCTCTTCGTGCTGCTTACAATAATCCAGAAAGGGCTGTTGATTACCTTTATTCTGGAATACCTGAACAAGTTGAAGCCCCACCTGCTCGAGTTCCATCAACTGTGCAAGCAACCAATCCTTCCGCTCAACCTGCACAGCCAGCCCAACCTGCATCTGTGCCATCGACTGGCCCAAATGCTAATCCATTAGATCTCTTTCCTCAGGGTGTGCCTAATATAGCTTCCGGAGCTGTTGGTTCTGGCAGTCTTGATTTTCTACGAAATAGTCCTCAGTTCCAAGCTTTGCGAGCAATGGTGCGAGCTAACCCTCAGATACTCCAGCCTATGCTTCAAGAGTTGGGTAAACAAAATCCTCAGCTGATTAGGCTTATTCAAGATCATCAACCTGACTTCCTCCGCTTGATTAATGAGCCCCTTGAAGGAGAAGGGAATATACTTGGGCAGCTCGCTGAGGCCATGCCGCAGGCTATAACTGTAACCCCAGAGGAGCGCGAAGCTATTCAACGGCTGGAGGATATGGGTTTCGACAGGGGTCTAGTTGTGGAGGTTTTCTTCGCCTGCAACAAAAACGAGGAAATGGCTGCCAACTATCTTTTAGATCATATTCACGAATTTGAGGGTAATCAGAATTAG 1224 48.37 MKIFVKTLKGSHFEIEVQPADTVADVKKNIETVQGADVYPAAQQMLIHQGKVLKDSTTLEENKVAENSFIVIMLTKNKSSSGGTSSTTQAAPVSKAPQSTAPAPAATPVSTSEVPLPTSAAPATVTDSSPPAPALAPAPAPAPAAAPAPAPATTVLPESDVYSQAASNLVAGSNLEETIQQILDMGEGVWDRDTVVRALRAAYNNPERAVDYLYSGIPEQVEAPPARVPSTVQATNPSAQPAQPAQPASVPSTGPNANPLDLFPQGVPNIASGAVGSGSLDFLRNSPQFQALRAMVRANPQILQPMLQELGKQNPQLIRLIQDHQPDFLRLINEPLEGEGNILGQLAEAMPQAITVTPEEREAIQRLEDMGFDRGLVVEVFFACNKNEEMAANYLLDHIHEFEGNQN 407
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 2709806 2718017 + Lsi04G002620.1 Lsi04g00262 660311

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g00262 407 MobiDBLite consensus disorder prediction 226 260 - -
Lsi04g00262 407 SMART ubq_7 1 75 IPR000626 GO:0005515
Lsi04g00262 407 TIGRFAM rad23: UV excision repair protein Rad23 1 403 IPR004806 GO:0006289
Lsi04g00262 407 PANTHER UV EXCISION REPAIR PROTEIN RAD23-RELATED 1 404 - -
Lsi04g00262 407 Gene3D - 352 399 - -
Lsi04g00262 407 Pfam Ubiquitin family 3 76 IPR000626 GO:0005515
Lsi04g00262 407 PRINTS DNA repair protein Rad23 signature 306 328 IPR004806 GO:0006289
Lsi04g00262 407 PRINTS DNA repair protein Rad23 signature 354 370 IPR004806 GO:0006289
Lsi04g00262 407 PRINTS DNA repair protein Rad23 signature 371 385 IPR004806 GO:0006289
Lsi04g00262 407 PRINTS DNA repair protein Rad23 signature 386 401 IPR004806 GO:0006289
Lsi04g00262 407 Gene3D - 168 218 - -
Lsi04g00262 407 ProSiteProfiles Ubiquitin-associated domain (UBA) profile. 173 216 IPR015940 -
Lsi04g00262 407 SUPERFAMILY XPC-binding domain 276 341 IPR036353 GO:0003684|GO:0006289|GO:0043161
Lsi04g00262 407 SUPERFAMILY Ubiquitin-like 1 79 IPR029071 -
Lsi04g00262 407 Gene3D - 1 80 - -
Lsi04g00262 407 MobiDBLite consensus disorder prediction 78 152 - -
Lsi04g00262 407 Pfam UBA/TS-N domain 175 213 IPR015940 -
Lsi04g00262 407 Pfam UBA/TS-N domain 360 395 IPR015940 -
Lsi04g00262 407 Gene3D - 270 335 IPR036353 GO:0003684|GO:0006289|GO:0043161
Lsi04g00262 407 ProSiteProfiles Ubiquitin domain profile. 1 79 IPR000626 GO:0005515
Lsi04g00262 407 SUPERFAMILY UBA-like 160 219 IPR009060 GO:0005515
Lsi04g00262 407 SMART uba_6 360 397 IPR015940 -
Lsi04g00262 407 SMART uba_6 175 215 IPR015940 -
Lsi04g00262 407 SUPERFAMILY UBA-like 340 402 IPR009060 GO:0005515
Lsi04g00262 407 MobiDBLite consensus disorder prediction 229 259 - -
Lsi04g00262 407 MobiDBLite consensus disorder prediction 78 126 - -
Lsi04g00262 407 CDD UBA1_Rad23_plant 169 218 - -
Lsi04g00262 407 SMART CBM 278 321 IPR006636 -
Lsi04g00262 407 ProSiteProfiles Ubiquitin-associated domain (UBA) profile. 357 398 IPR015940 -
Lsi04g00262 407 PANTHER UV EXCISION REPAIR PROTEIN RAD23 1 404 - -
Lsi04g00262 407 MobiDBLite consensus disorder prediction 132 150 - -
Lsi04g00262 407 Pfam XPC-binding domain 280 335 IPR015360 GO:0003684|GO:0006289|GO:0043161
Lsi04g00262 407 CDD Ubl_Rad23 1 74 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g00262 K10839 RAD23, HR23; UV excision repair protein RAD23 - csv:101220491 673.315
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi03g01440 Lsi-Chr3:25348009 Lsi04g00262 Lsi-Chr4:2709806 1.16E-102 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
Vvi1g298 . . . . . Bpe10g00939 Bma14g01707 Bma15g00085 . Cmo18g01038 . Cma18g01028 . Car18g00948 Sed06g1882 Cpe09g00295 . Bhi07g01334 Tan04g0868 Cmetu10g1073 Lac13g0486 Hepe01g1200 . . Cla05g02307 . Cec05g2503 Cco05g2545 . . Cre05g2454 Cone13ag0836 Cone19ag0843 . . Lsi04g00262 Csa05g02604 Chy10g01139 Cme10g00268 . Blo11g00839 Bda07g01534 . Bpe11g01698 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
       

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
OG0004990 1 1 1 2 2 0 2 1 1 1 1 0 2 1 1 2 1 4 2 1 1 1 1 1 1 1 1 3 2 2 41
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g00262 Lsi_Chr04 FPKM 34.586124 31.426258 26.737581 26.930634 43.562515 40.784687 45.159851 0.0 0.0 0.0