Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa04g00517 ATGTCCTTCTCCATCTCCACCCGCCACCACATACGTCGACTATCTACGGCAGCCGCCGCCGCCGCCACCAATGCCACGGCGACGACGTCCTCTTCTTCATTATCCATCTCAAGAGCGAAGTCTAAACTTAGAACCGAGTATGATCCAGATAAAGCCGTAGAAATTTACTCTTCTGTTTCTAGTCACTACACCTCTCCTGTCACTTCTCGTTACGCTCAAGAAATAACCATCCGCCGCCTTGCTAAGGCCCGTCGATTCAAGGACATCGAATCCCTAATCGAGTCCCATAAAAACGACCCGAAGATCACTCAGGAACCTTTTTTGTCCACCCTGATTCGATCCTACGGTCGAGTTGGTATGTTCGAGCACGCTATGAGGACTTATAATCAAATGGGTGATTTAGGAACTCCACGATCCGCACTATCATTTAATGCCCTGTTAACTGCTTGTAACAATTCGAAGCAATTCGACAAGGTTCCCCAACTGTTCGACGAAATGCCCAAGAGATATAATTTCTCTCCCAATAAGTTCTCGTACGGTATCCTGGTTAAATCCTATTGCGACGCGGGTTCTCCTGAGAAAGCCATGGAGATTGTACGAGAAATGGAGGAAAATGGCGTGGAGGTAAATGCTGTGACATTCACAACCATATTAAATGCTCTGTACAAGAAGGGTGACAGCGCAGAGGCAGAGAAAATATGGGAGACGATGATATCAAAAGGGTGTGAACTTGATGTTGGAGCCTATAATGTTAGATTGATGCACGAACATGGTGGCAAGCCAGAGCATGTACAAGCTTTAATCGAGGAAATGGCTAATTCAGGTTTGAAACCCGATGCAATTAGTTATAATTACTTAATGACTTGTTATTGTAAGAATGGGATGTTTGATGAAGCAAAGAAGGTGTATAACGATATGGAGATAAATGGGTGTAATAAGAATGCTGCAACTTTTAGGACACTTATTTATCACCTTTGTAGAAATGGGGAGTATGAGAAAGGGTACAAGGTTTTTAAGGAGAGTGTGAAGATGAATAAGATTCCTGATTTTAACACGCTGAAGTATTTGGTGGAGGGGCTAGTGGAGAAGAAGATGATGAGAGAAGCCAAAGGTTTAATCAGGACTATAAGGAAGAAATTCCCTCCTGATACTTTGAAGGCTTGGAGAGAAGTTGAGGAAGGGGTTGGTTTGGCTTCCGCTGGTGATGATGTTTCTTCTAAGGATGATGATGAAACTAGAACATGA 1245 43.61 MSFSISTRHHIRRLSTAAAAAATNATATTSSSSLSISRAKSKLRTEYDPDKAVEIYSSVSSHYTSPVTSRYAQEITIRRLAKARRFKDIESLIESHKNDPKITQEPFLSTLIRSYGRVGMFEHAMRTYNQMGDLGTPRSALSFNALLTACNNSKQFDKVPQLFDEMPKRYNFSPNKFSYGILVKSYCDAGSPEKAMEIVREMEENGVEVNAVTFTTILNALYKKGDSAEAEKIWETMISKGCELDVGAYNVRLMHEHGGKPEHVQALIEEMANSGLKPDAISYNYLMTCYCKNGMFDEAKKVYNDMEINGCNKNAATFRTLIYHLCRNGEYEKGYKVFKESVKMNKIPDFNTLKYLVEGLVEKKMMREAKGLIRTIRKKFPPDTLKAWREVEEGVGLASAGDDVSSKDDDETRT* 415
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 3390581 3391825 - CsaV3_4G005170.1 Csa04g00517 526127

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa04g00517 414 Pfam PPR repeat family 278 327 IPR002885 -
Csa04g00517 414 SUPERFAMILY HCP-like 186 377 - -
Csa04g00517 414 Pfam Pentacotripeptide-repeat region of PRORP 122 229 IPR033443 -
Csa04g00517 414 PANTHER MITOCHONDRIAL GROUP I INTRON SPLICING FACTOR CCM1 8 403 - -
Csa04g00517 414 PANTHER BNAA09G52830D PROTEIN 8 403 - -
Csa04g00517 414 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 314 348 IPR002885 -
Csa04g00517 414 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 175 209 IPR002885 -
Csa04g00517 414 Gene3D Tetratricopeptide repeat domain 6 165 IPR011990 GO:0005515
Csa04g00517 414 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 210 244 IPR002885 -
Csa04g00517 414 Gene3D Tetratricopeptide repeat domain 166 254 IPR011990 GO:0005515
Csa04g00517 414 Gene3D Tetratricopeptide repeat domain 255 408 IPR011990 GO:0005515
Csa04g00517 414 ProSiteProfiles Pentatricopeptide (PPR) repeat profile. 279 313 IPR002885 -
Csa04g00517 414 TIGRFAM PPR: pentatricopeptide repeat domain 317 349 IPR002885 -
Csa04g00517 414 TIGRFAM PPR: pentatricopeptide repeat domain 212 246 IPR002885 -
Csa04g00517 414 TIGRFAM PPR: pentatricopeptide repeat domain 109 135 IPR002885 -
Csa04g00517 414 TIGRFAM PPR: pentatricopeptide repeat domain 142 175 IPR002885 -
Csa04g00517 414 TIGRFAM PPR: pentatricopeptide repeat domain 177 211 IPR002885 -
Csa04g00517 414 TIGRFAM PPR: pentatricopeptide repeat domain 281 313 IPR002885 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa04g00517 - - - csv:105435344 796.964
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa01g01089 Csa-Chr1:6762914 Csa04g00517 Csa-Chr4:3390581 3.51E-65 dispersed
Csa04g00517 Csa-Chr4:3390581 Csa06g03564 Csa-Chr6:28891238 1.59E-61 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
Vvi4g942 . . . . . Bpe13g00453 . . . Cmo16g00710 . . . . . . . . . . . . . . . . . . . . . . . Cone6ag1611 Cone9ag1539 . . Chy07g01284 . . . Bda11g01875 . . . . Bma06g00129 . . . Cma16g00653 . . . . Cpe14g00557 . . . . . . . Cla07g00859 Cam07g0931 Cec07g0996 Cco07g0972 Clacu07g0905 Cmu07g0905 Cre07g1273 Lsi07g00214 Csa04g00517 . .
       

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
OG0012727 1 0 0 1 1 1 1 1 1 1 1 1 1 1 1 1 1 2 1 1 1 0 1 1 1 1 1 1 1 1 28
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Csa04g00517 Csa_Chr04 FPKM 13.623415 11.766184 2.778085 3.671888 4.546167 4.295498 3.452451 3.622236 2.745454 3.70581