Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi05g00972 ATGTCGGCACAAGTGGTGGGTTGGCCACCAATAAGGTCGTATAGAAAGAAGAGGTTGGGGGTTCAAAAGGGGAGCAAAGAGGAAGAAAGTGATGAAGAAAAGAAAGTGGTGAAGGTTAGGTTTGTGAAGGTTAGCCTTGATGGTGCACCTTATCTTCGTAAGGTTGACTTGAACATCTACAACAGCTACAATCAACTTTCTCATGCCTTAGCCAAATTCTTTGGTGCCTTCACCATTGGAGCTGAGTGGAAGATGAGTTTAATATCACAAAATGCTGCTGTAATTAGTAGTATTGAGAAGGTTACAGGGGAGAATATTGTTGGTTCGTCATCTCCGTTGAGAAATGTAGATGCTAGTGATGTAGAAAACTATGGTCTAGATACTACTAGGGCAAAGAAGAGAAAGAAAGAACACAAAAAAGAAGATGAAGAACTAGTAAAAGACCAACAGAAGGAAATGAAGAAGCTCGAAAACTTTCTTTTTGGATCGCTCAATTCTCCTGTTGAATTTGGGAAGGATGAAGAGCAAAATGGTTTTAGTTCTGAGGAGAAAGTTCCTGCTTTGTACATAATGGACCGCTCTGCAAATAATTCCCTTTCTGCATATGAAGATGATTTTGGGCTCCTAGATGAGAGTACGGATAAGGAGGAACCTCAGCAAAGGAAACCAGTATGGGTCGATGAGGAAGAGGACAAGGCCACAGTTAATATTACTAATGTTAGCAGACTGAGAAAGTTGAGGAAGGAAGAAGATAAGAATTCGATTTCTGGCTCAGAGTACGTGTCGAGACTGAGGGCTCAACATGCCAAGCTAAACCCAGGCACCGAGTGGGCTCAACTTGATGCACAATCCACGGGTGATAGTGATGATGATGATCGATCATCAGATGCTGAAAATGCAGTTGCATTGGCTGATGGTTATGATAATGTTGATTCTATTGATGATATCCTTCGAACAAGTGAGAATCTTGTTGTAAAGAGAGGTGCAAAATTGTTGCCTGGTCTTCTTGAATACTCAAGACTTGTAGATGCTAATGCAGAGGAGCCATCTAATGGTCCTATCAATTCGGTTCAGTTTCATCGCAACGCTCAGTTACTACTAGCCACTGGGTTGGATCGAAAGCTTAGATTTTTTCAGATTGATGGCAAACGGAATACCAAAATTCAAAGCATTTTCCTTGAGGATTGCCCCATACGAAAGGCATCCTTTTTGCCTGATGGATCTCAGGTTATCATAGCTGGAAGGAGAAAGTTCTTCTATAGCCTCGATTTAGTGAAAGCAAAAGTAGATAAAATTGGCCCTCTTGTAGGTAGAGAGGAGAAAAGCCTTGAAGTTTTTGAAGTTTCTCCTGATTCTAGCACGGTCGCATTTATTGGTAATGAAGGCTATATCCTGTTAGTGTCAACCAAAACAAAGGAGCTCATCGGGACGCTTAAGATGAATGGAAGCGTTCGTTCTTTGGCATTCGCAGACAATGGACGACAGCTACTGAGCTCCGGTGGTGACGGGCAGGTCTACCACTGGGATTTGCGAACAAGAACATGCATCCACAAGGGTGTCGACGAAGGTTGCATCAATGGTACTGCACTATGTACATCTCCAAATGGAGCATTGTTTGCAGCTGGTTCTGACAGTGGCATTGTTAACATCTACAATAGACAAGAATTCTTAGGGGGCAAGAAGAAGCCATTGAAAGCCATTGAGAATCTGACCACCAAAGTAGACTTTCTCAAATTCAATCATGATGCTCAAATATTGGCCATCTGTTCAAGAAGGAAGAAAAGTAGTTTGAAGTTGATACATGTTCCTTCTTTTACTGTATTTTCGAACTGGCCGCCGCCGAAGAAGAACCTTCAATACCCTTCATGTTTGGATTTCAGTCCTGAAGGAGGTTACATGGCTGTGGGAAATGCTGCTGGAAAGAAGAAGAAGCAGAAGAAGAAGAGCAATAATGTTTGTGGGATCGAAATCTTAGCTTCAGAGATGGCTGGAGATGGATTTGTTATCCCTGTGGAATCTCAGGTGGGTTCGGTGAAGAAGAAGAAGAAGCAGACAACGACGACGAAGAAGAAGAATACTGCGATTTCCAGGAGCTGGGTTTCGTTGGACCATGAAGGAAGGAGTACGATTTTGGATGTGGATAAGTATGCGATTATGCAAAGGGTTCAGATTAATGCCAGAGATCTTCGGCTTCTTGATCCTCTGTTGTCGTATCCTTCCACTATCTTGGGCAGAGAAAGAGTGATTGTTCTCAATTTGGAGGTGCTGCTTAGAGATCCAATGGATGAAAATGTAGTTCCAATTGTTGAAGAACTGCAGAGACGGTTGCCTTCCACAAATTCCCTATACCAAGGACAAGGGGAGGAAGAAGAGCCTTCTACCACCCAAAATGAGTTGGCTGAAAACGAATTTCCATTTGAATTCCGCGCTTTAGAGGTTGCACTCGAAGCAATTTGTAGTTTTCTTGATGCACGCACAAGAGAACTAGAGACTGATACATATCCTGCTTTAGATGAGCTGACCTCCAAGATTAGCAGTCGGAACTTGGATCGAGTGCGCAAACTGAAGAGTGCAATGACAAGATTGACAAATCGGGTGCAAAAGGTTAGAGATGAACTCGAACAACTTCTGGATGACGATGACGACATGGCGGAACTTTACTTGTCACGAAAAGTAGCTGGCACCCCTGAAAGTGGCTGTGGGACTCCAATCTGGTTTCTTGCTTCTCCCAAGGACTATTCAAAGATGTCTAAAACAAGTAGAGCAAGTGCAATTACTATTCGAGGAGAGAATGATGTTGAGGAACTAGAAATGCTACTCGAGTTGCGGGAGTACATCGATGACACAGAGGATTACATCAATATTCAGGTGGTCATCCTGACAGGAGTAGTTTGTGCAACCATTTATATGTCACTAAGCTCATATGCGCGATACAAAGGTCTCGTTGGATCTTGA 2955 42.88 MSAQVVGWPPIRSYRKKRLGVQKGSKEEESDEEKKVVKVRFVKVSLDGAPYLRKVDLNIYNSYNQLSHALAKFFGAFTIGAEWKMSLISQNAAVISSIEKVTGENIVGSSSPLRNVDASDVENYGLDTTRAKKRKKEHKKEDEELVKDQQKEMKKLENFLFGSLNSPVEFGKDEEQNGFSSEEKVPALYIMDRSANNSLSAYEDDFGLLDESTDKEEPQQRKPVWVDEEEDKATVNITNVSRLRKLRKEEDKNSISGSEYVSRLRAQHAKLNPGTEWAQLDAQSTGDSDDDDRSSDAENAVALADGYDNVDSIDDILRTSENLVVKRGAKLLPGLLEYSRLVDANAEEPSNGPINSVQFHRNAQLLLATGLDRKLRFFQIDGKRNTKIQSIFLEDCPIRKASFLPDGSQVIIAGRRKFFYSLDLVKAKVDKIGPLVGREEKSLEVFEVSPDSSTVAFIGNEGYILLVSTKTKELIGTLKMNGSVRSLAFADNGRQLLSSGGDGQVYHWDLRTRTCIHKGVDEGCINGTALCTSPNGALFAAGSDSGIVNIYNRQEFLGGKKKPLKAIENLTTKVDFLKFNHDAQILAICSRRKKSSLKLIHVPSFTVFSNWPPPKKNLQYPSCLDFSPEGGYMAVGNAAGKKKKQKKKSNNVCGIEILASEMAGDGFVIPVESQVGSVKKKKKQTTTTKKKNTAISRSWVSLDHEGRSTILDVDKYAIMQRVQINARDLRLLDPLLSYPSTILGRERVIVLNLEVLLRDPMDENVVPIVEELQRRLPSTNSLYQGQGEEEEPSTTQNELAENEFPFEFRALEVALEAICSFLDARTRELETDTYPALDELTSKISSRNLDRVRKLKSAMTRLTNRVQKVRDELEQLLDDDDDMAELYLSRKVAGTPESGCGTPIWFLASPKDYSKMSKTSRASAITIRGENDVEELEMLLELREYIDDTEDYINIQVVILTGVVCATIYMSLSSYARYKGLVGS 984
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
5 16940257 16965333 + Lsi05G009720.1 Lsi05g00972 663464

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi05g00972 984 Gene3D - 681 757 - -
Lsi05g00972 984 Pfam WD domain, G-beta repeat 475 509 IPR001680 GO:0005515
Lsi05g00972 984 Pfam WD domain, G-beta repeat 525 552 IPR001680 GO:0005515
Lsi05g00972 984 Gene3D Magnesium transport protein CorA, transmembrane region 763 958 - -
Lsi05g00972 984 PANTHER U3 SMALL NUCLEOLAR RNA-ASSOCIATED PROTEIN 18 HOMOLOG 131 641 - -
Lsi05g00972 984 Pfam AUX/IAA family 2 82 IPR033389 -
Lsi05g00972 984 ProSiteProfiles Trp-Asp (WD) repeats profile. 477 518 IPR001680 GO:0005515
Lsi05g00972 984 PANTHER WD-REPEAT PROTEIN-RELATED 131 641 IPR045161 GO:0006364
Lsi05g00972 984 Gene3D - 329 643 IPR015943 GO:0005515
Lsi05g00972 984 Gene3D - 34 149 - -
Lsi05g00972 984 MobiDBLite consensus disorder prediction 272 296 - -
Lsi05g00972 984 ProSiteProfiles Trp-Asp (WD) repeats circular profile. 477 512 - -
Lsi05g00972 984 SMART WD40_4 560 601 IPR001680 GO:0005515
Lsi05g00972 984 SMART WD40_4 339 379 IPR001680 GO:0005515
Lsi05g00972 984 SMART WD40_4 512 552 IPR001680 GO:0005515
Lsi05g00972 984 SMART WD40_4 471 509 IPR001680 GO:0005515
Lsi05g00972 984 Coils Coil 132 159 - -
Lsi05g00972 984 Coils Coil 852 879 - -
Lsi05g00972 984 SUPERFAMILY WD40 repeat-like 350 640 IPR036322 GO:0005515
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi05g00972 K14553 UTP18; U3 small nucleolar RNA-associated protein 18 - csv:101208908 938.332
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi05g00972 Lsi-Chr5:16940257 Lsi06g00847 Lsi-Chr6:17822100 1.72E-20 dispersed
Lsi08g00899 Lsi-Chr8:17351890 Lsi05g00972 Lsi-Chr5:16940257 2.30E-29 transposed
Lsi10g00524 Lsi-Chr10:7473575 Lsi05g00972 Lsi-Chr5:16940257 0 transposed
Lsi05g00972 Lsi-Chr5:16940257 Lsi05g01663 Lsi-Chr5:24300871 1.48E-20 wgd
Lsi05g00972 Lsi-Chr5:16940257 Lsi09g01276 Lsi-Chr9:20562789 4.86E-93 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
Vvi7g1 . . . Bda10g00569 . . . . . . . . . . Sed09g1086 . . Bhi09g01119 Tan06g1038 Cmetu01g0247 . Hepe03g2044 . . . . . . . . . . . . . . . . . Blo07g01023 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Lsi05g00972 . . .
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Lsi03g01255 . 1 447 MRS2 Gene Family AT1G16010 85.0 6.6e-207 716.8
Lsi08g00899 . 6 380 MRS2 Gene Family AT1G16010 52.6 4.1e-108 388.7
Lsi09g01276 . 1 410 MRS2 Gene Family AT5G64560 63.1 4.0e-128 454.9
Lsi05g00972 . 662 969 MRS2 Gene Family AT5G64560 59.5 1.8e-91 333.2
Lsi03g00598 . 244 730 MRS2 Gene Family AT3G19640 62.3 1.7e-147 519.6
Lsi05g00158 . 54 473 MRS2 Gene Family AT3G58970 65.1 1.7e-138 489.6
Lsi08g00899 . 6 380 MRS2 Gene Family AT2G03620 68.6 2.0e-136 482.6
Lsi03g01255 . 13 447 MRS2 Gene Family AT2G03620 52.8 3.4e-112 402.1
Lsi09g01276 . 1 372 MRS2 Gene Family AT5G09690 56.7 5.3e-97 351.3
Lsi05g00972 . 662 957 MRS2 Gene Family AT5G09690 57.8 3.2e-86 315.5
Lsi03g01255 . 40 383 MRS2 Gene Family AT5G09690 50.3 5.5e-78 288.1
Lsi09g01276 . 23 321 MRS2 Gene Family AT5G09720 55.5 1.9e-72 269.6
Lsi05g00972 . 696 945 MRS2 Gene Family AT5G09720 57.7 3.6e-68 255.4
Lsi03g01255 . 1 447 MRS2 Gene Family AT1G80900 83.2 1.2e-200 696.0
Lsi08g00899 . 6 380 MRS2 Gene Family AT1G80900 54.2 1.3e-106 383.6
Lsi03g00069 . 116 255 MRS2 Gene Family AT5G22830 68.6 6.1e-46 182.2
Lsi03g00068 . 1 139 MRS2 Gene Family AT5G22830 61.4 4.4e-44 176.0
       

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
OG0002983 1 10 1 1 1 1 2 2 2 1 2 2 2 1 0 2 2 2 2 2 1 1 0 2 0 2 1 1 1 1 49
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
25337 PF02309 AUX_IAA 8.30E-29 CL0072 Lsi TR
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi05g00972 Lsi_Chr05 FPKM 2.480496 2.631759 2.16275 2.452238 4.340158 3.170556 4.750751 2.266914 2.331626 2.952388