introns
Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)
- id
- INTEGER (primary key), globally unique identifier for each intron
- dinucleotide_pair
- TEXT, terminal dinucleotide sequences of the intron
- is_minor
- INTEGER, indicates if the intron is a minor intron (1) or not (0)
- score
- REAL, score representing the probability (0-100%) of the intron being minor
- length
- INTEGER, length of the intron in base pairs
- transcript_id
- INTEGER (foreign key referencing transcripts(id)), parent transcript
- ordinal_index
- INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
- start
- INTEGER, start position of the intron in the genome
- end
- INTEGER, end position of the intron in the genome
- taxonomy_id
- INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
- scored_motifs
- TEXT, motifs scored for the intron
- phase
- INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
- in_cds
- INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
- relative_position
- REAL, relative position of the intron within the transcript (as a percentage of coding length)
3 rows where transcript_id = 3485082
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Suggested facets: phase
id ▼ | dinucleotide_pair | is_minor | score | length | transcript_id | ordinal_index | start | end | taxonomy_id | scored_motifs | phase | in_cds | relative_position |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
17202887 | GT-AG | 0 | 0.0003172830709767 | 1038 | rna-gnl|WGS:SAUD|Avbf_05108-RA_mrna 3485082 | 1 | 51397 | 52434 | Armadillidium vulgare 13347 | GAG|GTATGATGAT...CTTATTTTAACA/TATTTGCTTATT...AATAG|ATC | 0 | 1 | 34.802 |
17202888 | GT-AG | 0 | 0.0001878684998476 | 5621 | rna-gnl|WGS:SAUD|Avbf_05108-RA_mrna 3485082 | 2 | 52663 | 58283 | Armadillidium vulgare 13347 | AGG|GTAAATTTTA...GTGGTTTTAAAT/CGATTATTCATT...TGCAG|GAA | 0 | 1 | 68.282 |
17202889 | GT-AG | 0 | 1.879369444664577e-05 | 2678 | rna-gnl|WGS:SAUD|Avbf_05108-RA_mrna 3485082 | 3 | 58409 | 61086 | Armadillidium vulgare 13347 | AAT|GTAAGTTCAA...CGAGGTTTGATA/CGAGGTTTGATA...CTAAG|CTG | 2 | 1 | 86.637 |
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CREATE TABLE "introns" ( "id" INTEGER, "dinucleotide_pair" TEXT, "is_minor" INTEGER, "score" REAL, "length" INTEGER, "transcript_id" INTEGER, "ordinal_index" INTEGER, "start" INTEGER, "end" INTEGER, "taxonomy_id" INTEGER, "scored_motifs" TEXT, "phase" INTEGER, "in_cds" INTEGER, "relative_position" REAL ,PRIMARY KEY ([id]), FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]), FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id]) ); CREATE INDEX [idx_introns_transcript_id] ON [introns] ([transcript_id]); CREATE INDEX [idx_introns_taxonomy_id] ON [introns] ([taxonomy_id]); CREATE INDEX [idx_introns_phase] ON [introns] ([phase]); CREATE INDEX [idx_introns_is_minor] ON [introns] ([is_minor]); CREATE INDEX [idx_introns_dinucleotide_pair] ON [introns] ([dinucleotide_pair]); CREATE INDEX [idx_introns_score] ON [introns] ([score]); CREATE INDEX [idx_introns_in_cds] ON [introns] ([in_cds]);