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Commit f8618c7c authored by tjc's avatar tjc
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gff feature keys 

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@2445 ee4ac58c-ac51-4696-9907-e4b3aa274f04
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etc/feature_keys_gff
+ 33
− 33
View file @ f8618c7c
...@@ -5,37 +5,37 @@ ...@@ -5,37 +5,37 @@
# #
# key Qualifiers (@=mandatory) # key Qualifiers (@=mandatory)
# ======= ======================== # ======= ========================
region ID Name Alias Parent Note description locus stable_id ec_number gene_symbol Ontology_term dbxref molecule_type size organism_name strain translation_table topology localization gff_source gff_seqname score region ID Name Alias Parent Note description locus stable_id ec_number gene_symbol Ontology_term dbxref molecule_type size organism_name strain translation_table topology localization gff_source gff_seqname score colour color
contig ID Name Alias Parent Note description locus stable_id ec_number gene_symbol Ontology_term Dbxref molecule_type size organism_name strain translation_table topology localization gff_source gff_seqname score contig ID Name Alias Parent Note description locus stable_id ec_number gene_symbol Ontology_term Dbxref molecule_type size organism_name strain translation_table topology localization gff_source gff_seqname score colour color
supercontig ID Name Alias Parent Note description locus stable_id ec_number gene_symbol Ontology_term Dbxref molecule_type size organism_name strain translation_table topology localization gff_source gff_seqname score supercontig ID Name Alias Parent Note description locus stable_id ec_number gene_symbol Ontology_term Dbxref molecule_type size organism_name strain translation_table topology localization gff_source gff_seqname score colour color
chromosome ID Name Alias Parent Note note description locus stable_id ec_number gene_symbol Ontology_term Dbxref molecule_type size organism_name strain translation_table topology localization gff_source gff_seqname score chromosome ID Name Alias Parent Note note description locus stable_id ec_number gene_symbol Ontology_term Dbxref molecule_type size organism_name strain translation_table topology localization gff_source gff_seqname score colour color
gene ID Name Alias Parent Note description locus stable_id ec_number gene_symbol Ontology_term Dbxref molecule_type size organism_name strain translation_table topology localization gff_source gff_seqname score gene ID Name Alias Parent Note description locus stable_id ec_number gene_symbol Ontology_term Dbxref molecule_type size organism_name strain translation_table topology localization gff_source gff_seqname score colour color
CDS ID Name Alias Parent Note description locus stable_id ec_number gene_symbol Ontology_term Dbxref molecule_type size organism_name strain translation_table topology localization gff_source gff_seqname score CDS ID Name Alias Parent Note description locus stable_id ec_number gene_symbol Ontology_term Dbxref molecule_type size organism_name strain translation_table topology localization gff_source gff_seqname score colour color
polypeptide ID Name Alias Parent Note description locus stable_id ec_number gene_symbol Ontology_term Dbxref molecule_type size organism_name strain translation_table topology localization gff_source gff_seqname score polypeptide ID Name Alias Parent Note description locus stable_id ec_number gene_symbol Ontology_term Dbxref Product molecule_type size organism_name strain translation_table topology localization gff_source gff_seqname score colour color mass isoelectric charge
pseudogene ID Name Alias Parent Note description locus stable_id ec_number gene_symbol Ontology_term Dbxref molecule_type size organism_name strain translation_table topology localization gff_source gff_seqname score pseudogene ID Name Alias Parent Note description locus stable_id ec_number gene_symbol Ontology_term Dbxref molecule_type size organism_name strain translation_table topology localization gff_source gff_seqname score colour color
intron ID Name Alias Parent Note description locus stable_id ec_number gene_symbol Ontology_term Dbxref molecule_type size organism_name strain translation_table topology localization gff_source gff_seqname score intron ID Name Alias Parent Note description locus stable_id ec_number gene_symbol Ontology_term Dbxref molecule_type size organism_name strain translation_table topology localization gff_source gff_seqname score colour color
exon ID Name Alias Parent Note description locus stable_id ec_number gene_symbol Ontology_term Dbxref molecule_type size organism_name strain translation_table topology localization gff_source gff_seqname score exon ID Name Alias Parent Note description locus stable_id ec_number gene_symbol Ontology_term Dbxref molecule_type size organism_name strain translation_table topology localization gff_source gff_seqname score colour color
three_prime_UTR ID Alias Parent Note systematic_id db_xref note three_prime_UTR ID Alias Parent Note systematic_id db_xref note colour color
five_prime_UTR ID Alias Parent Note systematic_id db_xref note five_prime_UTR ID Alias Parent Note systematic_id db_xref note colour color
transcript transcript
primary_transcript ID Name Alias Parent Note db_xref product note controlled_curation primary_transcript ID Name Alias Parent Note db_xref product note controlled_curation colour color
tRNA ID Name Alias Parent Note db_xref product note controlled_curation tRNA ID Name Alias Parent Note db_xref product note controlled_curation colour color
rRNA ID Name Alias Parent Note db_xref product note controlled_curation rRNA ID Name Alias Parent Note db_xref product note controlled_curation colour color
mRNA ID Name Alias Parent Note db_xref product note controlled_curation mRNA ID Name Alias Parent Note db_xref product note controlled_curation colour color
snRNA ID Name Alias Parent Note db_xref product note controlled_curation snRNA ID Name Alias Parent Note db_xref product note controlled_curation colour color
scRNA ID Name Alias Parent Note db_xref product note controlled_curation scRNA ID Name Alias Parent Note db_xref product note controlled_curation colour color
snoRNA ID Name Alias Parent Note db_xref product note controlled_curation snoRNA ID Name Alias Parent Note db_xref product note controlled_curation colour color
polypeptide_domain ID Name Alias Parent Note polypeptide_domain ID Name Alias Parent Note colour color
signal_peptide ID Name Alias Parent Note signal_peptide ID Name Alias Parent Note colour color
matches ID Name Alias Parent Note Target Gap Derives_from Dbxref Ontology_term matches ID Name Alias Parent Note Target Gap Derives_from Dbxref Ontology_term colour color
nucleotide_match ID Name Alias Parent Note Target Gap Derives_from Dbxref Ontology_term gff_source gff_seqname score nucleotide_match ID Name Alias Parent Note Target Gap Derives_from Dbxref Ontology_term gff_source gff_seqname score colour color
translated_nucleotide_match ID Name Alias Parent Note Target Gap Derives_from Dbxref Ontology_term translated_nucleotide_match ID Name Alias Parent Note Target Gap Derives_from Dbxref Ontology_term colour color
protein_match ID Name Alias Parent Note Target Gap Derives_from Dbxref Ontology_term protein_match ID Name Alias Parent Note Target Gap Derives_from Dbxref Ontology_term colour color
sequence_difference ID Name Alias Parent Note Target Gap Derives_from Dbxref Ontology_term sequence_difference ID Name Alias Parent Note Target Gap Derives_from Dbxref Ontology_term colour color
repeat_region ID Name Alias Parent Note Target Gap Derives_from Dbxref Ontology_term repeat_region ID Name Alias Parent Note Target Gap Derives_from Dbxref Ontology_term colour color
direct_repeat ID Name Alias Parent Note Target Gap Derives_from Dbxref Ontology_term direct_repeat ID Name Alias Parent Note Target Gap Derives_from Dbxref Ontology_term colour color
inverted_repeat ID Name Alias Parent Note Target Gap Derives_from Dbxref Ontology_term inverted_repeat ID Name Alias Parent Note Target Gap Derives_from Dbxref Ontology_term colour color
dispersed_repeat ID Name Alias Parent Note Target Gap Derives_from Dbxref Ontology_term dispersed_repeat ID Name Alias Parent Note Target Gap Derives_from Dbxref Ontology_term colour color
repeat_family ID Name Alias Parent Note Target Gap Derives_from Dbxref Ontology_term gff_source gff_seqname score repeat_family ID Name Alias Parent Note Target Gap Derives_from Dbxref Ontology_term gff_source gff_seqname score colour color
transposable_element ID Name Alias Parent Target Gap Derives_from Note Dbxref Ontology_term transposable_element ID Name Alias Parent Target Gap Derives_from Note Dbxref Ontology_term colour color
binding_site ID Name Alias Parent Target Gap Derives_from Note Dbxref Ontology_term binding_site ID Name Alias Parent Target Gap Derives_from Note Dbxref Ontology_term colour color
etc/qualifier_types_gff
+ 8
− 86
View file @ f8618c7c
...@@ -28,6 +28,7 @@ Name no text ...@@ -28,6 +28,7 @@ Name no text
Alias no text Alias no text
Parent no text Parent no text
Note no "text" Note no "text"
Product no "text"
description no text description no text
Ontology_term no text Ontology_term no text
gff_source no text gff_source no text
...@@ -37,89 +38,10 @@ Target no text ...@@ -37,89 +38,10 @@ Target no text
Gap no text Gap no text
Derives_from no text Derives_from no text
Dbxref no "text" Dbxref no "text"
# polypeptide no text
allele no "text" polypeptide_domain no text
anticodon yes (::) pos aa colour no text
bound_moiety no "text" color no text
cell_line no "text" mass no text
cell_type no "text" isoelectric no text
chromosome no "opt" charge no text
citation no ref
clone no "text"
clone_lib no "text"
codon no (::) seq aa
codon_start yes number 1 3
cons_splice yes (::) 5'site 3'site
country no "text"
cultivar no "text"
db_xref no "text"
dev_stage no "text"
direction yes list LEFT RIGHT BOTH
ecotype no "text"
EC_number no "text"
environmental_sample no none
estimated_length no "text"
evidence yes list EXPERIMENTAL NOT_EXPERIMENTAL
exception no "text"
focus no none
frequency yes real 0.0 1.0
function yes "text"
gene no "text"
germline yes none
haplotype no "text"
insertion_seq no "text"
isolation_source no "text"
isolate no "text"
kinetoplast no "opt"
label yes item
lab_host no "text"
locus_tag no "text"
macronuclear no none
map no "text"
mod_base no modbase
mol_type no "text"
note no "text"
number yes number 1 99999999
operon no "text"
organell no "text"
organism yes "text"
partial yes none
PCR_conditions no "text"
phenotype no "text"
plasmid no "text"
pop_variant no "text"
product no "text"
protein_id no "text"
proviral yes none
pseudo yes none
rearranged yes none
replace no "text"
rpt_family no "text"
rpt_type no list TANDEM INVERTED FLANKING TERMINAL DIRECT \
DISPERSED OTHER
rpt_unit no location
segment no "text"
sequenced_mol no "list" "cDNA" "cDNA to genomic RNA" \
"cDNA to mRNA" "cDNA to other RNA" \
"cDNA to rRNA" "DNA" "mRNA" \
"RNA" "rRNA" "scRNA" "snRNA" "tRNA"
serotype no "text"
serovar no "text"
sex no "text"
specific_host no "text"
specimen_voucher no "text"
standard_name no "text"
strain no "text"
sub_clone no "text"
sub_species no "text"
sub_strain no "text"
tissue_lib no "text"
tissue_type no "text"
transgenic no "text"
translation no "text"
transl_except no (::) pos aa
transl_table no number 1 11
transposon no "text"
usedin no feature
variety no "text"
virion no none
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