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)
6 rows where transcript_id = 34480544
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Suggested facets: score, length
id ▼ | dinucleotide_pair | is_minor | score | length | transcript_id | ordinal_index | start | end | taxonomy_id | scored_motifs | phase | in_cds | relative_position |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
193751362 | GT-AG | 0 | 0.0594056525364652 | 69 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA451500 34480544 | 1 | 4425955 | 4426023 | Syncephalastrum racemosum 13706 | GAA|GTATGCTATT...AATGGTTTAATG/AATGGTTTAATG...TGTAG|GAA | 0 | 1 | 2.028 |
193751363 | GT-AG | 0 | 1.000000099473604e-05 | 56 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA451500 34480544 | 2 | 4425089 | 4425144 | Syncephalastrum racemosum 13706 | CAA|GTAAGACCGG...AATGGCTTTGTG/TGGGTACTGATG...ACTAG|ATC | 0 | 1 | 25.838 |
193751364 | GT-AG | 0 | 1.000000099473604e-05 | 54 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA451500 34480544 | 3 | 4424678 | 4424731 | Syncephalastrum racemosum 13706 | AAG|GTGGGTACAT...TGGTCATTAAAC/TGGTCATTAAAC...TTTAG|ATC | 0 | 1 | 36.332 |
193751365 | GT-AG | 0 | 1.000000099473604e-05 | 56 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA451500 34480544 | 4 | 4424439 | 4424494 | Syncephalastrum racemosum 13706 | TTG|GTAAGTCCAA...GACAACTCACAC/AGACAACTCACA...TATAG|TAC | 0 | 1 | 41.711 |
193751366 | GT-AG | 0 | 4.177577836935261e-05 | 52 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA451500 34480544 | 5 | 4424084 | 4424135 | Syncephalastrum racemosum 13706 | TCG|GTAAGTTTTG...CGTTACTTACTC/TACTTACTCATT...TCTAG|AGC | 0 | 1 | 50.617 |
193751367 | GT-AG | 0 | 1.000000099473604e-05 | 77 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA451500 34480544 | 6 | 4422975 | 4423051 | Syncephalastrum racemosum 13706 | ACG|GTAAAGCAAA...CTTGTTTTAGTG/AATAATCTAACT...ATCAG|ATC | 0 | 1 | 80.952 |
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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]);