Difference between revisions of "ENA Annotations"
GabiDroege (talk | contribs) (Created page with "Annotations must follow the INSDC vocabulary (http://www.insdc.org/files/feature_table.html): =trnG= CharSet trnG_tRNA = 1-13; CharSet trnG_exon = 1-13; CharSet trnGIGS_misc_...") |
GabiDroege (talk | contribs) m (GabiDroege moved page Internal:ENA Annotations to ENA Annotations) |
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=trnG= | =trnG= | ||
| + | <code> | ||
CharSet trnG_tRNA = 1-13; | CharSet trnG_tRNA = 1-13; | ||
| + | |||
CharSet trnG_exon = 1-13; | CharSet trnG_exon = 1-13; | ||
| + | |||
CharSet trnGIGS_misc_feature = 14-1103; change this to "trnG-trnS intergenic spacer" in embl-File before submission | CharSet trnGIGS_misc_feature = 14-1103; change this to "trnG-trnS intergenic spacer" in embl-File before submission | ||
| + | </code> | ||
=ITS= | =ITS= | ||
| + | <code> | ||
CharSet 18S_rRNA = 1-3; | CharSet 18S_rRNA = 1-3; | ||
| + | |||
CharSet ITS1_misc_RNA = 4-303; | CharSet ITS1_misc_RNA = 4-303; | ||
| + | |||
CharSet 58S_misc_feature = 304-459; change this to "5.8S" in embl-File before submission | CharSet 58S_misc_feature = 304-459; change this to "5.8S" in embl-File before submission | ||
| + | |||
CharSet ITS2_misc_RNA = 460-723; | CharSet ITS2_misc_RNA = 460-723; | ||
| + | |||
CharSet 28S_rRNA = 724-747; | CharSet 28S_rRNA = 724-747; | ||
| + | </code> | ||
| + | |||
| + | =rbcL= | ||
| + | <code> | ||
| + | CharSet rbcL_CDS = 1-957; must be a multiple of 3! | ||
| + | |||
| + | CharSet rbcL_gene = 1-959; | ||
| + | </code> | ||
=rpl16= | =rpl16= | ||
| + | <code> | ||
CharSet rpl16_intron = 1-1120; | CharSet rpl16_intron = 1-1120; | ||
| + | |||
CharSet rpl16_gene = 1-1120; | CharSet rpl16_gene = 1-1120; | ||
| + | |||
CharSet rpl16_exon = 1121-1123; | CharSet rpl16_exon = 1121-1123; | ||
| + | </code> | ||
=trnL-trnF= | =trnL-trnF= | ||
| + | <code> | ||
CharSet trnL_exon = 1-17 575-624; | CharSet trnL_exon = 1-17 575-624; | ||
| + | |||
CharSet trnL_gene = 1-17 575-624; | CharSet trnL_gene = 1-17 575-624; | ||
| + | |||
CharSet trnL_tRNA = 1-17 575-624; | CharSet trnL_tRNA = 1-17 575-624; | ||
| + | |||
CharSet trnL_intron = 18-574; | CharSet trnL_intron = 18-574; | ||
| + | |||
CharSet trnLtrnF_misc_feature = 625-989; change this to "trnL-trnF" in embl-File before submission | CharSet trnLtrnF_misc_feature = 625-989; change this to "trnL-trnF" in embl-File before submission | ||
| + | |||
CharSet trnF_gene = 990-1049; | CharSet trnF_gene = 990-1049; | ||
| + | |||
CharSet trnF_tRNA = 990-1049; | CharSet trnF_tRNA = 990-1049; | ||
| + | </code> | ||
=trnK-matK= | =trnK-matK= | ||
| + | <code> | ||
CharSet trnK_exon = 1-3 2563-2597; | CharSet trnK_exon = 1-3 2563-2597; | ||
| + | |||
CharSet trnK_gene = 1-3 2563-2597; | CharSet trnK_gene = 1-3 2563-2597; | ||
| + | |||
CharSet trnK_tRNA = 1-3 2563-2597; | CharSet trnK_tRNA = 1-3 2563-2597; | ||
| − | CharSet trnK_intron = 4- | + | |
| + | CharSet trnK_intron = 4-704; | ||
| + | |||
CharSet matK_gene = 705-2240; | CharSet matK_gene = 705-2240; | ||
| + | |||
CharSet matK_CDS = 705-2240; (optional) | CharSet matK_CDS = 705-2240; (optional) | ||
| + | |||
CharSet trnKpsbA_misc_feature = 2598-2839; change this to "trnK-psbA" in embl-File before submission | CharSet trnKpsbA_misc_feature = 2598-2839; change this to "trnK-psbA" in embl-File before submission | ||
| + | |||
CharSet psbA_gene = 2840-2897; | CharSet psbA_gene = 2840-2897; | ||
| + | |||
CharSet psbA_CDS = 2840-2897; (optional, must be a multiple of 3!) | CharSet psbA_CDS = 2840-2897; (optional, must be a multiple of 3!) | ||
| + | </code> | ||
Latest revision as of 10:00, 20 April 2021
Annotations must follow the INSDC vocabulary (http://www.insdc.org/files/feature_table.html):
Contents
1 trnG
CharSet trnG_tRNA = 1-13;
CharSet trnG_exon = 1-13;
CharSet trnGIGS_misc_feature = 14-1103; change this to "trnG-trnS intergenic spacer" in embl-File before submission
2 ITS
CharSet 18S_rRNA = 1-3;
CharSet ITS1_misc_RNA = 4-303;
CharSet 58S_misc_feature = 304-459; change this to "5.8S" in embl-File before submission
CharSet ITS2_misc_RNA = 460-723;
CharSet 28S_rRNA = 724-747;
3 rbcL
CharSet rbcL_CDS = 1-957; must be a multiple of 3!
CharSet rbcL_gene = 1-959;
4 rpl16
CharSet rpl16_intron = 1-1120;
CharSet rpl16_gene = 1-1120;
CharSet rpl16_exon = 1121-1123;
5 trnL-trnF
CharSet trnL_exon = 1-17 575-624;
CharSet trnL_gene = 1-17 575-624;
CharSet trnL_tRNA = 1-17 575-624;
CharSet trnL_intron = 18-574;
CharSet trnLtrnF_misc_feature = 625-989; change this to "trnL-trnF" in embl-File before submission
CharSet trnF_gene = 990-1049;
CharSet trnF_tRNA = 990-1049;
6 trnK-matK
CharSet trnK_exon = 1-3 2563-2597;
CharSet trnK_gene = 1-3 2563-2597;
CharSet trnK_tRNA = 1-3 2563-2597;
CharSet trnK_intron = 4-704;
CharSet matK_gene = 705-2240;
CharSet matK_CDS = 705-2240; (optional)
CharSet trnKpsbA_misc_feature = 2598-2839; change this to "trnK-psbA" in embl-File before submission
CharSet psbA_gene = 2840-2897;
CharSet psbA_CDS = 2840-2897; (optional, must be a multiple of 3!)
