WormBase Model:Transcript
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Curator Comments/Description
Model
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// ?Transcript class - krb 021126
//
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?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 ?Accession_number XREF Transcript
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 // [020306 kj]
Confidential_remark ?Text
SAGE_tag ?SAGE_tag XREF Transcript #SAGE_mapping_info
Remark ?Text #Evidence
Properties Transcript UNIQUE mRNA UNIQUE Processed_mRNA
Unprocessed_mRNA
tRNA Type UNIQUE Text // ck1 [030926] krb
Anticodon UNIQUE Text //
rRNA UNIQUE Text
snRNA UNIQUE Text
snoRNA UNIQUE Text // [030102 krb]
scRNA UNIQUE Text
stRNA UNIQUE Text // [010723 dl]
miRNA UNIQUE Text // [020306 kj]
ncRNA UNIQUE Text // true non-coding RNAs
snlRNA UNIQUE Text //small nuclear like
u21RNA UNIQUE Text //21U-RNA
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
