Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa03g00415 ATGTCCGGCAAAGATAAGAATTTGCATAATATGTCGGAGTCGGAATCCGAGCAAGAAGGCGTTGACAAAGAAGGCATTGAGTGGATAATGAATCTTCCAGACGTGCCCATGAAGCTCCCACCACATGTCGAATTGCAGAGAACTCGAGTCGAATGCAAAGCCGATGCTCCCATTCATACAGATACCATACAGTATTCTGGAGCATTTGCTTCCATGGGCTTTGACAACAGTTTACGTCTGGATAATTTTCGCAACAACTTTAAAATTGAAGTTATTGATCTGAAAGAGGATGACATTGAGTTTGACATGATTGGCATTGATCCAGCACTTGCTAATGCATTTCGAAGAATCCTGATATCCGAGGTTCCCACTATGGCTATTGAAAAAGTTCTTTTTGCCAACAATACATCAATAGTTCAAGATGAAGTGCTTGCCCATAGGTTAGGTCTCGTTCCGATTCGTGTTGATCCAAGGCTTTTCAAGTACTCAGATAAAGACGCACCAAATGAGAACAATACCATTGTTTTTAGACTCCATGCTTGCTGTGAACGAGGAAAACCACGTCTTACAGTGACATCAAAAGCATTGACGTGGTTGCCAAATGGTAGTGAATTTCCCTTGGTGTCAGACAAATCAGTTTCAAATTCAAAACCCAAAACCTATACTTCTTTTAGTTGCAGCCAGAACACACTGTCGAAAGAATTTTCCAACAATCCAATTGGTCCAAAGGACAGTGATATTATACTTGCTAGACTTGGCCCGGGTCAGGAAATTGAGCTTGAAGCTCATGCTGTTAAAGGTATGGGTAAAACGCATGCTAAGTGGTCCCCTGTGGCCACTGCTTGGTACAGGATGCTTCCTGAGGTTGTACTCATGGAAGAAATAGAGGATGAGCTAGCTGAAGAACTAGAAAAGAAATGTCCTGTTAATGTATTTGACATTGAAGACATAGCTGGTAAGAAAAGGGCAACCGTAGCACGCCCACGAGATTGCACATTGTGTAGAGAATGCATTAGAGGAGATGCATGGGAGAAACGTGTCGCATTGCGTCGTGTGAAAGACCATTTCATTTTTAAGATTGAATCAACAGGAGCTTTACCTCCCGAGGTTCTCTTCACTGAAGCTGTAAAGATTTTGGAAGATAAGTGCGAACGTTTAATTGCCGAGCTGTCTTAA 1176 42.18 MSGKDKNLHNMSESESEQEGVDKEGIEWIMNLPDVPMKLPPHVELQRTRVECKADAPIHTDTIQYSGAFASMGFDNSLRLDNFRNNFKIEVIDLKEDDIEFDMIGIDPALANAFRRILISEVPTMAIEKVLFANNTSIVQDEVLAHRLGLVPIRVDPRLFKYSDKDAPNENNTIVFRLHACCERGKPRLTVTSKALTWLPNGSEFPLVSDKSVSNSKPKTYTSFSCSQNTLSKEFSNNPIGPKDSDIILARLGPGQEIELEAHAVKGMGKTHAKWSPVATAWYRMLPEVVLMEEIEDELAEELEKKCPVNVFDIEDIAGKKRATVARPRDCTLCRECIRGDAWEKRVALRRVKDHFIFKIESTGALPPEVLFTEAVKILEDKCERLIAELS* 392
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
3 3512213 3523388 + CsaV3_3G004150.1 Csa03g00415 521320

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa03g00415 391 CDD RNAP_I_II_AC40 87 389 IPR033901 GO:0001054|GO:0001056
Csa03g00415 391 ProSitePatterns RNA polymerases D / 30 to 40 Kd subunits signature. 112 152 IPR001514 GO:0003677|GO:0003899|GO:0006351
Csa03g00415 391 SMART rpoldneu2 98 389 IPR011263 GO:0003899|GO:0006351
Csa03g00415 391 Pfam RNA polymerase Rpb3/Rpb11 dimerisation domain 100 383 IPR011263 GO:0003899|GO:0006351
Csa03g00415 391 Pfam RNA polymerase Rpb3/RpoA insert domain 131 276 IPR011262 GO:0003899|GO:0006351|GO:0046983
Csa03g00415 391 ProSiteProfiles Ig-like domain profile. 157 236 IPR007110 -
Csa03g00415 391 PANTHER BNAA01G22480D PROTEIN 23 391 - -
Csa03g00415 391 SUPERFAMILY Insert subdomain of RNA polymerase alpha subunit 123 277 IPR036643 -
Csa03g00415 391 Hamap DNA-directed RNA polymerase subunit Rpo3 [rpo3]. 88 390 IPR022842 GO:0003899|GO:0006351
Csa03g00415 391 MobiDBLite consensus disorder prediction 1 21 - -
Csa03g00415 391 PANTHER DNA-DIRECTED RNA POLYMERASE 23 391 - -
Csa03g00415 391 SUPERFAMILY RBP11-like subunits of RNA polymerase 85 390 IPR036603 GO:0006351|GO:0046983
Csa03g00415 391 Gene3D - 89 382 IPR036603 GO:0006351|GO:0046983
Csa03g00415 391 Gene3D - 124 273 IPR036643 -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa03g00415 K03027 RPAC1, RPC40, POLR1C; DNA-directed RNA polymerases I and III subunit RPAC1 - csv:101203505 780.4
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa02g00821 Csa-Chr2:7378778 Csa03g00415 Csa-Chr3:3512213 9.31E-35 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
Vvi19g692 . . . . . . Bma10g00596 . . Cmo06g00676 . . . . . . . . . . . . . . . . . . . . . . . . . . Csa03g00415 . . . . . . . . . . Sed08g2915 . . . . . . . . Bhi11g00465 Tan01g1832 Cmetu06g2791 . . . . . . . . . . . Lsi05g00502 . Chy06g01897 .
       

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
OG0006783 1 4 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 2 3 1 36
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Csa03g00415 Csa_Chr03 FPKM 0.872265 0.68735 15.384757 15.318537 4.571058 3.082721 5.386552 4.921965 3.071841 3.794071