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 = 10029626

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
55135288 GT-AG 0 5.5242366345076674e-05 1175 rna-XM_004138227.3 10029626 2 808698 809872 Cucumis sativus 3659 AAG|GTATTGCGTA...AACATCTTATTG/AAACATCTTATT...GGCAG|GTG 2 1 6.953
55135289 GT-AG 0 0.0013371121860177 139 rna-XM_004138227.3 10029626 3 809954 810092 Cucumis sativus 3659 AAG|GTATTTACTT...TTCTTTTTGAAA/TTCTTTTTGAAA...TTCAG|GTT 2 1 8.581
55135290 GT-AG 0 1.000000099473604e-05 146 rna-XM_004138227.3 10029626 4 810138 810283 Cucumis sativus 3659 CAA|GTGAGTATGC...TCCTGGTTGACT/TCCTGGTTGACT...GATAG|GGG 2 1 9.486
55135291 GT-AG 0 0.3722580650921291 585 rna-XM_004138227.3 10029626 5 810657 811241 Cucumis sativus 3659 GTG|GTATCATGCT...CCTTCTTTAGTT/TCTTCCCTCATT...TGTAG|GGA 0 1 16.982
55135292 GT-AG 0 1.4300385189325108e-05 505 rna-XM_004138227.3 10029626 6 811345 811849 Cucumis sativus 3659 AAG|GTTTGTGCTT...AATCTCTTGAAA/TTGAAAATAACT...CACAG|ATA 1 1 19.051
55135293 GT-AG 0 0.0098271048991127 184 rna-XM_004138227.3 10029626 7 811907 812090 Cucumis sativus 3659 TTG|GTATGTGTTC...TTTACTTTGACT/TTTACTTTGACT...TACAG|ATG 1 1 20.197
55135294 GT-AG 0 1.000000099473604e-05 68 rna-XM_004138227.3 10029626 8 813394 813461 Cucumis sativus 3659 CAG|GTTTGTCCAA...GAGTGTTTAATT/GAGTGTTTAATT...TGCAG|GAG 2 1 46.383
55135295 GT-AG 0 0.0015346604750857 94 rna-XM_004138227.3 10029626 9 813721 813814 Cucumis sativus 3659 CAG|GTATATGTTT...TCTGTTTTATTA/TTCTGTTTTATT...TCCAG|CGT 0 1 51.588

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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]);