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)
8 rows where transcript_id = 3485055
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Suggested facets: score, phase, in_cds
id ▼ | dinucleotide_pair | is_minor | score | length | transcript_id | ordinal_index | start | end | taxonomy_id | scored_motifs | phase | in_cds | relative_position |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
17202744 | GT-AG | 0 | 1.000000099473604e-05 | 600 | rna-gnl|WGS:SAUD|Avbf_03531-RA_mrna 3485055 | 4 | 29751 | 30350 | Armadillidium vulgare 13347 | AAG|GTTAGAAATT...ATATATTTAAAA/TTACCATTTATT...GCCAG|GTT | 0 | 1 | 52.577 |
17202745 | GT-AG | 0 | 1.6950434165075916e-05 | 498 | rna-gnl|WGS:SAUD|Avbf_03531-RA_mrna 3485055 | 5 | 30526 | 31023 | Armadillidium vulgare 13347 | ATA|GTAAGTCAAA...TGATTTTTGATT/TTTTGATTTACT...GACAG|AAT | 1 | 1 | 62.6 |
17202746 | GT-AG | 0 | 1.000000099473604e-05 | 369 | rna-gnl|WGS:SAUD|Avbf_03531-RA_mrna 3485055 | 6 | 31181 | 31549 | Armadillidium vulgare 13347 | AAG|GTACAAATTA...GTGTCTTTCTTT/ATAATTCTTACG...ATCAG|CAA | 2 | 1 | 71.592 |
17202747 | GT-AG | 0 | 1.000000099473604e-05 | 466 | rna-gnl|WGS:SAUD|Avbf_03531-RA_mrna 3485055 | 7 | 31682 | 32147 | Armadillidium vulgare 13347 | CCA|GTAAGTAAAT...AAAATCTTTTCT/TTAGTAGTAAAA...CACAG|AAT | 2 | 1 | 79.152 |
17202748 | GT-AG | 0 | 0.0023152560963207 | 1423 | rna-gnl|WGS:SAUD|Avbf_03531-RA_mrna 3485055 | 8 | 32333 | 33755 | Armadillidium vulgare 13347 | TTG|GTATATATAT...CTTTTCATAATA/AATTTATTTACT...TACAG|GCC | 1 | 1 | 89.748 |
17202750 | GT-AG | 0 | 1.000000099473604e-05 | 2158 | rna-gnl|WGS:SAUD|Avbf_03531-RA_mrna 3485055 | 1 | 23828 | 25985 | Armadillidium vulgare 13347 | GAG|GTACGAATTT...ATTTACTTATTT/AATTTACTTATT...TTCAG|TTC | 0 | 28.293 | |
17202751 | GT-AG | 0 | 1.000000099473604e-05 | 1503 | rna-gnl|WGS:SAUD|Avbf_03531-RA_mrna 3485055 | 2 | 26148 | 27650 | Armadillidium vulgare 13347 | AAG|GTTTGTCGAT...ATATATATATAT/TATATATATATA...ATCAG|ATA | 0 | 37.572 | |
17202752 | GT-AG | 0 | 1.000000099473604e-05 | 1765 | rna-gnl|WGS:SAUD|Avbf_03531-RA_mrna 3485055 | 3 | 27838 | 29602 | Armadillidium vulgare 13347 | GAG|GTTAGTAGTA...TGATTTTTAGTC/TTTAATTTTATT...GCCAG|ATG | 0 | 48.282 |
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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]);