Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g02416 ATGGGCTACAGCCTACAACTACAACTTCATCTCACAAAACCCTTCCCGCCATTCACTCTCTCACTGTCTCACTCTTTCCTTTGTCTGATTTCTCTCAAAATCTTCTCTCTCGTCGGAGTTCGATCGAGAGAGGAAGTAAGCGAAATGCTGAAGCCGAAGCCCTTCGCCGGAGCTAATGTGTTTGTCTCCCGCAATCTTGTCGCTCCGGAGATGTTCGACGCTCTTCACGACGCTCTGAAGCAGAATGGGGCTGAGGTTTTCCTCTGTTGCGATCCCTCTCGAAACGGTCCTAATGATTATCATGTCATCTCCTCCGCCGATCACGAAAAGTTCGAGGATCTTCGCGCGAAGGGATGCAAGTTGCTAGGTATAGTTGTTGGCCAGGATTGGAGAGCAGTTTTCGACTGGAATGAGATTTATTATAGGAAATTGAATGTCTGGATTAATTTGTCAAATGTTATAGTTACTAAATTTCCGATGCCTGGGACTTGGTGCGTCGCTGACGACTTGAATTTCTGTTGGGAAGGTCCTCAGTGCGTGATGTCATGTGCAAAAGAGCACAGACCCCTTCCTCAACAGGGTTTTACTTGCTGCCTTGCAATGGATGGTGTGAAAATTCTGGCATCCGGTTTTCAGGAAGATGAAAAAGTTGAGATAGGGAAGTTAGTTAATGCAATGGGAGGAGTATTGCATACGAAAGCATCACTAGATGTCAGCTTTGTCATCGCGAAGAACGCTTTGGCTGCGAAATACAAGTGGGCACTAAACATTTCAAAGAAACCAATCTTGACATTTGCTTGGTTACAACAATGCTGGATTGAACATCGTGTAGTACCTCAGGAGGGATATCGAGTCCTTCCATTTTCTGGATTGAATATTTCGGTGAGCGCAAGGAGATTGAAAAGCTTATCTTGCAAAATGGTGGAAGATATTCTGCCGATCTTACAAGAAACTCCTGAAGGTGACAAGTACAAGGTTGCTCGGACATGGGGCCGTATCAATATTGTTACTCGGAAATGGTTTGATCAGTCCATCGCTAGAAAAGCATGTCTTAATGAGGAGTCGTACCCTGTTGGTAGCGTTTCTGGAACTTCAAATAAAATGACAAGGGGTTGCTTGACTGCTCACAATAGCCAAGAAAAGGTTACTGGGAACTTGCAAGCTGCACTGTCCTCATTTATTGCCGATTCAAATTTCCCAGCAGTTTCTGGTCCTGGGTTTTCAGATATGGATTTTGAAGCTACTCTTTCACAGAGCACATCTATGTTTTCAGATGCTTCTCATTTTATAAACGAGGTTGATGTTGAAGTGCCAGTTACGATGGGAAAGAATGAAGAAAACACTGATAATTGTATTGCAAATGACTTTCAGTCTGAAGACAACGACCTATATTTGTCAGCATGTAGAATAAAAGTTGTTGGGTTTGAAGCTTCTGAGATGCGGAAGATTGTGAATATGATTCTCAGAGGTGGAGGCTCCCGATACATGTTGTTCAATGACAAGTTAACACACATAATAGTTGGAAATCCATCGGAAATGGAGAAAAAGGAGGTTAGAGATATTGCAGCTTCAGGAGTCATTCATGTGGTTAGAACCAACTGGCTTGAAGATTGTGATCGTCAGAAGAAGGAGATCCCTATTCTTGGTAGACACATGGCATATGATGAACTTCTTCCTAAAGCATCCAGTAAAATGAGCACCATCGTTATGGATCGGAATAAAGTTCCGAATGTTCATCCAATCATGCCATCAAATGTGTTACAAGGAAATATTCATGTTAGAACTGGAAAGACATCAATGACAGAGGAAAAAATTCAAGAAAAAAGTGAAGCCAACGTGAGTGGAGACAGGACCATGAAATTATCCCAGAAAAGCCAACATTGTGTAGCAAATGGTACAAACAAGAGTCAAGAAAAGATGCGACATGATTTCATGGTTCCAAATGGGAAGTCATCACGTGTGTTTAAGGGAAAAATATTTTGTTTTTCTAGTTCCTTTCCGGAAGATCGGAGAGCTGAAATTATTGAATGGATAAATCAAGGGGGAGGGGAGGTTGTTGAAGATCATATGAAGCAGAAAGTGCACTTCACTGTTGAATGTCATGGCGGGATGCCAAGGAGTACAGATGTTCATACTACTTTCGTGTCAAGTCATTGGGTCCGATCATGTTTAGAGGATGGATGCTTGTGGGATACCAATGGGCACATTCTCTATTCTCCACTTCCTTGCTGTGTCCCTTTGTCTGGGTTTGAAAACATACGGTTCTGTGTTTCACAATATGATGATAGAGACAGAGTATTGTTAAGAAATCTGTGTTTTGTACTTGGGGCCAAGTTTGTGGAGAAGTTGACAAAGAAGGTAACCCATCTAATATGTAAGTTTTCTGATGGGACAAAGTATGAGGCTGCTTGTAAATGGGGAATACAATCAATTACAGCTGACTGGATATATGAGTGTGTCAGACAGAGTAAGATTGTTTCTCTTGATTTGTATCGGCCAAAAGAAGTTACAGCTCACGACAGAGCGGCGGGCTTATGCACTGTCAGTCAGTTTCCTACTCAAGCTGTCCAAATGATAGCCAGTGAAAGTGAATCCCATTTCCCTATCCATTCTGCTATCCGGAGGGACCAATCAGCTGGAAATAACAGTAGCTCTATAGGAGAAGTTGAACAAATAAGTTTTACTAAAAAAAGGCGCAAGTTCCTTGACGAAGCTATACAAAAGCGTTCACTTTTTGTTGGAAACAGTTCCACTCATCATGACTGCAATTTGAACTCCTCAAAAGAAACTACATCAAAATCTTCTGTAGTAACTTCAAATGTCCCTGATTTCGCTGATGCAATTGAGGACTTGTTGGAGCAGACAACTAAGATTCATGATCAGAAGTCACCTAGAAAGACTGGCTGCGACAAAAGTACTTTCCCACCCGACTGTTCGGTCATTGGTCAAGACCATTCAGAAGCTCCTCCAATTGATGGTTTATCTAACCAGTGGCCAAAAAGAGAAGAAAGAAATGAAGATGTCAGCAATCCTACTACTGGAGATGGGAGTGTAGGCATATATTATGGCTTTAGTGAAACACAAACTGAGTCTCAGGATTTGAAGGCCTCCCACCTCGTCGTCTTGGAAGAGCAAGATGACACCACCGGCATCAGTGTGGGCACGGAGGCCATTCACCAGCTCCGGGTGTGGGCATGGTGGGTAGTGGCTGACTTTGGTGCCGAAGAAGGCCTTTTCCAGCCCTTCGCCACCATTGAAGGCAGCCTTTATATGGCTGGCTTACTTGAATCCAGGAATGTTGGATGGCCATTCGTTGTTATCATGGAGAAGGAAGACGTCTTCCCAATCAAGATTTTCCAGCTTCTCACCACTCTTGTTCTCCAGCAAATCATTCAGGAGCTTCACAGGTTTTGA 3414 43.06 MGYSLQLQLHLTKPFPPFTLSLSHSFLCLISLKIFSLVGVRSREEVSEMLKPKPFAGANVFVSRNLVAPEMFDALHDALKQNGAEVFLCCDPSRNGPNDYHVISSADHEKFEDLRAKGCKLLGIVVGQDWRAVFDWNEIYYRKLNVWINLSNVIVTKFPMPGTWCVADDLNFCWEGPQCVMSCAKEHRPLPQQGFTCCLAMDGVKILASGFQEDEKVEIGKLVNAMGGVLHTKASLDVSFVIAKNALAAKYKWALNISKKPILTFAWLQQCWIEHRVVPQEGYRVLPFSGLNISVSARRLKSLSCKMVEDILPILQETPEGDKYKVARTWGRINIVTRKWFDQSIARKACLNEESYPVGSVSGTSNKMTRGCLTAHNSQEKVTGNLQAALSSFIADSNFPAVSGPGFSDMDFEATLSQSTSMFSDASHFINEVDVEVPVTMGKNEENTDNCIANDFQSEDNDLYLSACRIKVVGFEASEMRKIVNMILRGGGSRYMLFNDKLTHIIVGNPSEMEKKEVRDIAASGVIHVVRTNWLEDCDRQKKEIPILGRHMAYDELLPKASSKMSTIVMDRNKVPNVHPIMPSNVLQGNIHVRTGKTSMTEEKIQEKSEANVSGDRTMKLSQKSQHCVANGTNKSQEKMRHDFMVPNGKSSRVFKGKIFCFSSSFPEDRRAEIIEWINQGGGEVVEDHMKQKVHFTVECHGGMPRSTDVHTTFVSSHWVRSCLEDGCLWDTNGHILYSPLPCCVPLSGFENIRFCVSQYDDRDRVLLRNLCFVLGAKFVEKLTKKVTHLICKFSDGTKYEAACKWGIQSITADWIYECVRQSKIVSLDLYRPKEVTAHDRAAGLCTVSQFPTQAVQMIASESESHFPIHSAIRRDQSAGNNSSSIGEVEQISFTKKRRKFLDEAIQKRSLFVGNSSTHHDCNLNSSKETTSKSSVVTSNVPDFADAIEDLLEQTTKIHDQKSPRKTGCDKSTFPPDCSVIGQDHSEAPPIDGLSNQWPKREERNEDVSNPTTGDGSVGIYYGFSETQTESQDLKASHLVVLEEQDDTTGISVGTEAIHQLRVWAWWVVADFGAEEGLFQPFATIEGSLYMAGLLESRNVGWPFVVIMEKEDVFPIKIFQLLTTLVLQQIIQELHRF 1137
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 31289786 31307069 - Lsi04G024160.1 Lsi04g02416 662465

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g02416 1137 Gene3D BRCT domain 646 743 IPR036420 -
Lsi04g02416 1137 SUPERFAMILY BRCT domain 170 285 IPR036420 -
Lsi04g02416 1137 SUPERFAMILY BRCT domain 715 834 IPR036420 -
Lsi04g02416 1137 SMART BRCT_7 285 348 IPR001357 -
Lsi04g02416 1137 SMART BRCT_7 462 542 IPR001357 -
Lsi04g02416 1137 SMART BRCT_7 652 727 IPR001357 -
Lsi04g02416 1137 SMART BRCT_7 747 823 IPR001357 -
Lsi04g02416 1137 SMART BRCT_7 198 275 IPR001357 -
Lsi04g02416 1137 MobiDBLite consensus disorder prediction 980 1012 - -
Lsi04g02416 1137 Pfam BRCA1 C Terminus (BRCT) domain 652 698 IPR001357 -
Lsi04g02416 1137 Pfam twin BRCT domain 754 815 IPR001357 -
Lsi04g02416 1137 Pfam twin BRCT domain 204 264 IPR001357 -
Lsi04g02416 1137 ProSiteProfiles BRCT domain profile. 650 737 IPR001357 -
Lsi04g02416 1137 MobiDBLite consensus disorder prediction 615 635 - -
Lsi04g02416 1137 Gene3D BRCT domain 199 289 IPR036420 -
Lsi04g02416 1137 ProSiteProfiles BRCT domain profile. 314 358 IPR001357 -
Lsi04g02416 1137 PANTHER DNA REPLICATION REGULATOR DPB11-RELATED 55 1044 - -
Lsi04g02416 1137 SUPERFAMILY BRCT domain 462 546 IPR036420 -
Lsi04g02416 1137 MobiDBLite consensus disorder prediction 609 637 - -
Lsi04g02416 1137 Gene3D BRCT domain 294 360 IPR036420 -
Lsi04g02416 1137 SUPERFAMILY BRCT domain 652 739 IPR036420 -
Lsi04g02416 1137 ProSiteProfiles BRCT domain profile. 460 552 IPR001357 -
Lsi04g02416 1137 SUPERFAMILY BRCT domain 317 362 IPR036420 -
Lsi04g02416 1137 ProSiteProfiles BRCT domain profile. 750 833 IPR001357 -
Lsi04g02416 1137 Gene3D BRCT domain 441 548 IPR036420 -
Lsi04g02416 1137 ProSiteProfiles BRCT domain profile. 201 285 IPR001357 -
Lsi04g02416 1137 Gene3D BRCT domain 747 839 IPR036420 -
Lsi04g02416 1137 CDD BRCT 204 271 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g02416 K10728 TOPBP1; topoisomerase (DNA) II binding protein 1 - csv:101212525 1551.18
       

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
Vvi18g215 . . . . . . . . . . . Cma09g00770 . . . Cpe06g00607 . . . . . . . . . . . . . . . . Cone7ag1503 . . Lsi04g02416 Csa04g01777 . . . . . . . . . . . . Cmo09g00762 . . . Car09g00680 . Cpe02g00570 Bhi09g02711 . . . . Mch11g0853 . Cla11g01556 Cam11g1620 Cec11g1647 Cco11g1648 Clacu11g1777 Cmu11g1593 Cre11g2011 . . Chy07g00604 Cme07g00814
       

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
OG0003479 1 4 1 1 1 0 2 1 0 4 1 1 1 1 1 2 1 1 2 1 7 1 1 1 2 1 1 1 1 1 44
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g02416 Lsi_Chr04 FPKM 13.018331 12.441409 47.725025 44.136902 127.693649 123.81192 116.726952 24.726076 26.423294 25.933193