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 = 3485093
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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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
17202960 | GT-AG | 0 | 0.0001103280867747 | 2330 | rna-gnl|WGS:SAUD|Avbf_00441-RA_mrna 3485093 | 1 | 133120 | 135449 | Armadillidium vulgare 13347 | CCA|GTAAGTATTA...CTTTTATTAATT/CTTTTATTAATT...AATAG|CTT | 1 | 1 | 10.47 |
17202961 | GT-AG | 0 | 1.2561656116729407e-05 | 340 | rna-gnl|WGS:SAUD|Avbf_00441-RA_mrna 3485093 | 2 | 135608 | 135947 | Armadillidium vulgare 13347 | AAA|GTAAGTCTTT...TTATTATTATTA/ATTATTATTATT...TACAG|GCA | 0 | 1 | 44.231 |
17202962 | GT-AG | 0 | 0.0021139860032151 | 1005 | rna-gnl|WGS:SAUD|Avbf_00441-RA_mrna 3485093 | 3 | 136092 | 137096 | Armadillidium vulgare 13347 | AAG|GTATTTGCTG...TGTTTCTTAGTA/CTGTTTCTTAGT...TTCAG|AGT | 0 | 1 | 75.0 |
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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]);