Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Lsi04g01038 ATGGGAGCTTCTAGCCTCCCTTGTTTTTCATCGCTATTTGGAGTTTTTCCACTTGAAAACAATGCTCCCAACAAATTTTTACCATTTTCTTCAATTCTTTCAAAACCCCATTTCCGATTGAACAGGATTTGCTGCGGAGTCCCCGAAAGTGGAATTCAGCAAAGCCCCTCAACTTCCAGAGCTTCCTCTTCCAAGAACAGGATGGAAGAGTACAATTTGGCTATGAAGAAGATGATGAGGAACCCCTATGAGTATCACCATGAACTCGGTATGAACTATAGTGTGATAGCTGACAATTTGATTGTCGGTTCCCAGCCTCAAAAACCTGTAGATATCGATTTCTTGAAGGAGGAAGAAGGTGTTGCCTATATTCTGAATTTACAGCAGGACAAGGATGTTGAGTACTGGGGAATCGACTTACAATCAATTATAAATAGATGTAAAGAACTTGGAATTCATCATATGAGGCAACCGGCAAAAGATTTTGATCCAGATTCCCTGAGAAATGGATTGCCTAAAGCTGTTTCCCTGCTAGAATGGGCGATTTCAGAGGGTAAAGGAAAAGTCTACGTGCATTGCACTGCTGGACTTGGAAGGGCCCCGGCTGTTGCGATAGCCTACCTGTACTGGTTTTGCGGAATGAATTTAAATACAGCATATGAAGCACTGACTTCTAAAAGACCTTGTGGACCAAGTAAAAAAGCGATCCGCGGAGCCACATACGATCTATCTAAAAATGATCCATGGAAGGAGCCGTTTGAGAGCCTTCCAGATAATGCATTCGAGGATATTGCAGATTGGGAAAGAAACTTGATTCGGGAGCGGACTTCTCTAGGATCTGCTAAGGCTCATCTAGTTCATTTTCCCACTTTATTCCTTCCTGTTGTTGCTCTATCTGCATTATCAGTGTTTCGAAACAGAATTGCCCAAGCTGTTCATTGTACGTATTTACATTATATCGATATTTCAGGAGGGTGTCAATATGTGCAGGCTGTGGAGAATAAGAGTTGGGACAATATATGTAGCAATAGAGTGTTGCACTTGATCTCTGCACAGAAATTTGGTTTCCTAATCTTGAAATTTTCTTCAGGCCAGGCAAAGGAGTTCTCATTTGTCTAA 1119 41.82 MGASSLPCFSSLFGVFPLENNAPNKFLPFSSILSKPHFRLNRICCGVPESGIQQSPSTSRASSSKNRMEEYNLAMKKMMRNPYEYHHELGMNYSVIADNLIVGSQPQKPVDIDFLKEEEGVAYILNLQQDKDVEYWGIDLQSIINRCKELGIHHMRQPAKDFDPDSLRNGLPKAVSLLEWAISEGKGKVYVHCTAGLGRAPAVAIAYLYWFCGMNLNTAYEALTSKRPCGPSKKAIRGATYDLSKNDPWKEPFESLPDNAFEDIADWERNLIRERTSLGSAKAHLVHFPTLFLPVVALSALSVFRNRIAQAVHCTYLHYIDISGGCQYVQAVENKSWDNICSNRVLHLISAQKFGFLILKFSSGQAKEFSFV 372
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 12179322 12182702 + Lsi04G010380.1 Lsi04g01038 661087

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Lsi04g01038 372 Coils Coil 61 81 - -
Lsi04g01038 372 Gene3D Protein tyrosine phosphatase superfamily 75 279 IPR029021 -
Lsi04g01038 372 SUPERFAMILY (Phosphotyrosine protein) phosphatases II 84 232 IPR029021 -
Lsi04g01038 372 PANTHER DUAL SPECIFICITY PHOSPHATASE, SUBGROUP, CATALYTIC DOMAIN 29 276 - -
Lsi04g01038 372 SMART dsp_5 92 234 IPR020422 GO:0006470|GO:0008138
Lsi04g01038 372 Pfam Dual specificity phosphatase, catalytic domain 115 229 IPR000340 GO:0008138|GO:0016311
Lsi04g01038 372 PANTHER PHOSPHOGLUCAN PHOSPHATASE LSF2, CHLOROPLASTIC 29 276 - -
Lsi04g01038 372 ProSiteProfiles Dual specificity protein phosphatase domain profile. 92 249 IPR020422 GO:0006470|GO:0008138
Lsi04g01038 372 CDD DSP_laforin-like 91 238 IPR045204 GO:0019203|GO:0046838
Lsi04g01038 372 ProSiteProfiles Tyrosine specific protein phosphatases domain profile. 169 228 IPR000387 GO:0016311|GO:0016791
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Lsi04g01038 - - - bhj:120080941 535.798
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Lsi03g01385 Lsi-Chr3:24823499 Lsi04g01038 Lsi-Chr4:12179322 2.99E-27 dispersed
Lsi04g00121 Lsi-Chr4:1337164 Lsi04g01038 Lsi-Chr4:12179322 9.26E-35 dispersed
Lsi04g01038 Lsi-Chr4:12179322 Lsi07g01277 Lsi-Chr7:18609281 2.82E-07 dispersed
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Lsi01g00954 . 33 601 Protein tyrosine phosphatase (PTP) family AT3G50110 51.3 2.6e-148 522.7
Lsi03g01516 . 1 407 Protein tyrosine phosphatase (PTP) family AT5G39400 65.9 3.1e-158 555.1
Lsi08g00665 . 3 859 Protein tyrosine phosphatase (PTP) family AT3G10550 61.0 4.5e-289 990.7
Lsi08g00665 . 4 859 Protein tyrosine phosphatase (PTP) family AT5G04540 58.9 6.3e-275 943.7
Lsi06g01160 . 3 1212 Protein tyrosine phosphatase (PTP) family AT5G58160 54.5 1.5e-288 989.6
Lsi06g01445 CCT 21 376 Protein tyrosine phosphatase (PTP) family AT5G58160 62.9 1.2e-115 415.2
Lsi06g01444 . 1 318 Protein tyrosine phosphatase (PTP) family AT5G58160 60.1 5.3e-108 389.8
Lsi02g01949 . 90 390 Protein tyrosine phosphatase (PTP) family AT1G71860 62.6 6.4e-109 391.0
Lsi06g01680 . 7 913 Protein tyrosine phosphatase (PTP) family AT5G23720 64.8 0.0e+00 1092.8
Lsi11g01661 . 1 192 Protein tyrosine phosphatase (PTP) family AT2G04550 67.2 4.2e-67 251.1
Lsi04g00121 . 96 317 Protein tyrosine phosphatase (PTP) family AT3G52180 58.0 1.2e-84 310.1
Lsi04g01038 . 29 275 Protein tyrosine phosphatase (PTP) family AT3G10940 72.8 8.5e-107 383.6
Lsi03g01385 . 139 540 Protein tyrosine phosphatase (PTP) family AT3G01510 72.4 5.2e-183 637.5
Lsi10g01569 CCT 9 210 Protein tyrosine phosphatase (PTP) family AT2G32960 59.9 1.0e-74 276.9
Lsi11g01669 CCT 28 213 Protein tyrosine phosphatase (PTP) family AT2G32960 56.5 3.0e-58 222.2
Lsi06g00702 . 44 215 Protein tyrosine phosphatase (PTP) family AT2G32960 51.5 5.3e-55 211.5
Lsi11g00210 . 20 263 Protein tyrosine phosphatase (PTP) family AT2G35680 55.9 1.3e-80 297.0
Lsi07g01277 . 23 282 Protein tyrosine phosphatase (PTP) family AT2G35680 57.3 6.2e-80 294.7
Lsi11g00210 . 27 218 Protein tyrosine phosphatase (PTP) family AT5G56610 50.5 9.5e-46 180.3
Lsi10g01569 CCT 18 211 Protein tyrosine phosphatase (PTP) family AT4G03960 71.6 7.6e-78 287.0
Lsi06g00702 . 58 215 Protein tyrosine phosphatase (PTP) family AT4G03960 63.3 1.4e-58 223.0
Lsi11g01669 CCT 37 214 Protein tyrosine phosphatase (PTP) family AT4G03960 55.8 1.8e-55 212.6
Lsi06g00702 . 52 241 Protein tyrosine phosphatase (PTP) family AT3G02800 70.5 2.4e-79 292.0
Lsi10g01569 CCT 40 206 Protein tyrosine phosphatase (PTP) family AT3G02800 61.7 1.3e-56 216.5
Lsi04g00858 . 1 188 Protein tyrosine phosphatase (PTP) family AT3G55270 66.1 2.5e-63 240.7
Lsi03g01516 . 1 407 Protein tyrosine phosphatase (PTP) family AT5G39400 65.9 3.1e-158 555.1
Lsi03g00522 . 14 730 Protein tyrosine phosphatase (PTP) family AT3G19420 52.3 1.4e-191 666.4
Lsi01g00954 . 31 601 Protein tyrosine phosphatase (PTP) family AT3G19420 50.7 7.1e-159 557.8
Lsi01g00954 . 33 601 Protein tyrosine phosphatase (PTP) family AT3G50110 51.3 2.6e-148 522.7
Lsi06g01160 . 3 1212 Protein tyrosine phosphatase (PTP) family AT5G58160 54.5 1.5e-288 989.6
Lsi06g01445 CCT 21 376 Protein tyrosine phosphatase (PTP) family AT5G58160 62.9 1.2e-115 415.2
Lsi06g01444 . 1 318 Protein tyrosine phosphatase (PTP) family AT5G58160 60.1 5.3e-108 389.8
Lsi08g00665 . 3 859 Protein tyrosine phosphatase (PTP) family AT3G10550 61.0 4.5e-289 990.7
Lsi08g00665 . 4 859 Protein tyrosine phosphatase (PTP) family AT5G04540 58.9 6.3e-275 943.7
Lsi10g01181 . 66 248 Protein tyrosine phosphatase (PTP) family AT3G44620 65.0 3.8e-69 258.5
Lsi07g01214 . 22 318 Protein tyrosine phosphatase (PTP) family AT2G35320 62.0 2.0e-109 392.5
Lsi01g01523 . 1 669 Protein tyrosine phosphatase (PTP) family AT3G09100 60.6 1.1e-245 846.3
Lsi01g01523 . 5 669 Protein tyrosine phosphatase (PTP) family AT5G01290 56.6 1.6e-220 762.7
       

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
OG0012743 1 1 1 1 1 1 1 1 1 1 1 1 0 1 1 0 1 1 0 1 1 1 1 1 1 1 1 1 2 1 28
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Lsi04g01038 Lsi_Chr04 FPKM 0.0 0.0 0.0 0.701087 0.0 0.0 0.0 2.781652 1.852028 2.223196