Difference between revisions of "WormBase Model:Transcript"
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Structure Source_exons Int UNIQUE Int | Structure Source_exons Int UNIQUE Int | ||
DB_info DB_remark ?Text #Evidence // was missing from first draft of Transcript class krb | DB_info DB_remark ?Text #Evidence // was missing from first draft of Transcript class krb | ||
− | Database ?Database ?Database_field UNIQUE ? | + | Database ?Database ?Database_field UNIQUE ?Text |
Origin From_laboratory UNIQUE ?Laboratory // [020306 kj] | Origin From_laboratory UNIQUE ?Laboratory // [020306 kj] | ||
Species UNIQUE ?Species // [020306 kj] | Species UNIQUE ?Species // [020306 kj] | ||
Line 38: | Line 38: | ||
Detailed_description ?Text #Evidence | Detailed_description ?Text #Evidence | ||
Concise_description ?Text #Evidence | Concise_description ?Text #Evidence | ||
− | Brief_identification UNIQUE Text | + | Brief_identification UNIQUE ?Text |
Confidential_remark ?Text | Confidential_remark ?Text | ||
SAGE_tag ?SAGE_tag XREF Transcript #SAGE_mapping_info | SAGE_tag ?SAGE_tag XREF Transcript #SAGE_mapping_info | ||
+ | RNASeq_FPKM ?Life_stage Float #Evidence | ||
Remark ?Text #Evidence | Remark ?Text #Evidence | ||
− | Properties Transcript UNIQUE mRNA UNIQUE Processed_mRNA | + | Properties Transcript UNIQUE asRNA UNIQUE Text |
+ | lincRNA UNIQUE Text // lincRNAs | ||
+ | mRNA UNIQUE Processed_mRNA | ||
Unprocessed_mRNA | Unprocessed_mRNA | ||
− | + | miRNA UNIQUE Text // [020306 kj] | |
− | + | ncRNA UNIQUE Text // true non-coding RNAs | |
+ | piRNA UNIQUE Text // 21U-RNA/piwi-interacting RNA/piRNA Gary W. WS228 | ||
rRNA UNIQUE Text | rRNA UNIQUE Text | ||
+ | scRNA UNIQUE Text | ||
+ | snoRNA UNIQUE Text // [030102 krb] | ||
snRNA UNIQUE Text | snRNA UNIQUE Text | ||
− | + | snlRNA UNIQUE Text // small nuclear like | |
− | |||
stRNA UNIQUE Text // [010723 dl] | stRNA UNIQUE Text // [010723 dl] | ||
− | + | tRNA Type UNIQUE Text // ck1 [030926] krb | |
− | + | Anticodon UNIQUE Text // | |
− | |||
− | |||
Isoform #Evidence // Set if this is a RNA isoform | Isoform #Evidence // Set if this is a RNA isoform | ||
Ignore #Evidence // Set for putative NMD targets which we do not want to see in wormrna | Ignore #Evidence // Set for putative NMD targets which we do not want to see in wormrna | ||
Line 60: | Line 63: | ||
End_not_found // [020306 kj] | End_not_found // [020306 kj] | ||
Associated_feature ?Feature XREF Associated_with_transcript #Evidence | Associated_feature ?Feature XREF Associated_with_transcript #Evidence | ||
− | Method UNIQUE ?Method | + | Method UNIQUE ?Method |
+ | |||
+ | |||
</pre> | </pre> | ||
Line 68: | Line 73: | ||
----------- | ----------- | ||
− | Start_not_found #acedb magic tag | + | Start_not_found #acedb magic tag |
− | + | ||
− | GO_term | + | End_not_found #acedb magic tag |
− | + | ||
− | Provisional_description | + | GO_term |
− | + | ||
− | Detailed_description | + | Provisional_description |
− | + | ||
− | Concise_description | + | Detailed_description |
+ | |||
+ | Concise_description |
Latest revision as of 09:32, 17 June 2013
Curator Comments/Description
Model
/////////////////////////////////////////////////////////////////// // // ?Transcript class - krb 021126 // /////////////////////////////////////////////////////////////////// ?Transcript Evidence #Evidence SMap S_parent UNIQUE Sequence UNIQUE ?Sequence XREF Transcript Structure Source_exons Int UNIQUE Int DB_info DB_remark ?Text #Evidence // was missing from first draft of Transcript class krb Database ?Database ?Database_field UNIQUE ?Text Origin From_laboratory UNIQUE ?Laboratory // [020306 kj] Species UNIQUE ?Species // [020306 kj] Visible Gene ?Gene XREF Corresponding_transcript // for live transcripts Gene_history UNIQUE ?Gene XREF Corresponding_transcript_history // when Transcript is dead Variation ?Variation XREF Transcript // added to fit two alleles of RNA genes [021127 krb] Matching_cDNA ?Sequence XREF Matching_transcript #Evidence // to attach non-coding RNA genes to matching ESTs Corresponding_CDS UNIQUE ?CDS XREF Corresponding_transcript #Evidence // 1-2-1 relationships with coding genes Corresponding_PCR_product ?PCR_product XREF Overlaps_transcript Corresponding_oligo_set ?Oligo_set XREF Overlaps_transcript Reference ?Paper XREF Transcript // [020306 kj] RNAi_result ?RNAi XREF Transcript //was missing from model [021126 krb] GO_term ?GO_term XREF Transcript ?GO_code #Evidence // [030411 krb] Microarray_results ?Microarray_results XREF Transcript //added for Microarray_results Provisional_description ?Text #Evidence Detailed_description ?Text #Evidence Concise_description ?Text #Evidence Brief_identification UNIQUE ?Text Confidential_remark ?Text SAGE_tag ?SAGE_tag XREF Transcript #SAGE_mapping_info RNASeq_FPKM ?Life_stage Float #Evidence Remark ?Text #Evidence Properties Transcript UNIQUE asRNA UNIQUE Text lincRNA UNIQUE Text // lincRNAs mRNA UNIQUE Processed_mRNA Unprocessed_mRNA miRNA UNIQUE Text // [020306 kj] ncRNA UNIQUE Text // true non-coding RNAs piRNA UNIQUE Text // 21U-RNA/piwi-interacting RNA/piRNA Gary W. WS228 rRNA UNIQUE Text scRNA UNIQUE Text snoRNA UNIQUE Text // [030102 krb] snRNA UNIQUE Text snlRNA UNIQUE Text // small nuclear like stRNA UNIQUE Text // [010723 dl] tRNA Type UNIQUE Text // ck1 [030926] krb Anticodon UNIQUE Text // Isoform #Evidence // Set if this is a RNA isoform Ignore #Evidence // Set for putative NMD targets which we do not want to see in wormrna Start_not_found // [020306 kj] End_not_found // [020306 kj] Associated_feature ?Feature XREF Associated_with_transcript #Evidence Method UNIQUE ?Method
Proposed Changes
Unised tags
Start_not_found #acedb magic tag End_not_found #acedb magic tag GO_term Provisional_description Detailed_description Concise_description