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)
5 rows where transcript_id = 6831622
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Suggested facets: dinucleotide_pair, is_minor, score, phase
id ▼ | dinucleotide_pair | is_minor | score | length | transcript_id | ordinal_index | start | end | taxonomy_id | scored_motifs | phase | in_cds | relative_position |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
35541028 | GT-AG | 0 | 1.000000099473604e-05 | 11918 | rna-XM_009697227.1 6831622 | 1 | 25514 | 37431 | Cariama cristata 54380 | TTG|GTAAGTGATA...ACTGCTTTGAAG/CTCTATTTAAAC...TCCAG|ATT | 1 | 1 | 14.867 |
35541029 | GT-AG | 0 | 1.000000099473604e-05 | 10161 | rna-XM_009697227.1 6831622 | 2 | 37572 | 47732 | Cariama cristata 54380 | GTG|GTAAGAAGCT...CTCGCTTTGTCA/GTGAAATTTATG...TTCAG|ATT | 0 | 1 | 27.257 |
35541030 | AT-AC | 1 | 99.99999999934228 | 3948 | rna-XM_009697227.1 6831622 | 3 | 47835 | 51782 | Cariama cristata 54380 | TTA|ATATCCTTTC...ATTTTCTTAACT/ATTTTCTTAACT...GTTAC|GAT | 0 | 1 | 36.283 |
35541031 | GT-AG | 0 | 1.000000099473604e-05 | 2702 | rna-XM_009697227.1 6831622 | 4 | 51958 | 54659 | Cariama cristata 54380 | CTG|GTAAGAGCTG...TTTCTCTTCTCT/AGATATTTCATC...GGCAG|AGC | 1 | 1 | 51.77 |
35541032 | GT-AG | 0 | 0.0019188837436053 | 1744 | rna-XM_009697227.1 6831622 | 5 | 54943 | 56686 | Cariama cristata 54380 | AAG|GTAACTTGTT...CTTCCCTTGCTG/TGGGCTTTCACC...TGTAG|GTT | 2 | 1 | 76.814 |
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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]);