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)

9 rows where transcript_id = 33342827

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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
186783229 GT-AG 0 8.702439569338535e-05 503 rna-XM_015206946.2 33342827 1 108913547 108914049 Solanum pennellii 28526 CCA|GTAAGTTCCT...GTTTTGTTACTT/CTTGTACTAATA...TATAG|CAT 0 1 4.367
186783230 GT-AG 0 3.7818838197365766e-05 1283 rna-XM_015206946.2 33342827 2 108911273 108912555 Solanum pennellii 28526 GTG|GTAAGCCTAA...AATATTTTGATG/GTATGCCTCATT...TGCAG|GTA 1 1 25.583
186783231 GT-AG 0 1.000000099473604e-05 113 rna-XM_015206946.2 33342827 3 108911041 108911153 Solanum pennellii 28526 ATG|GTTAGTATAT...GTTTTTTTAAGT/GTTTTTTTAAGT...TACAG|GTA 0 1 28.131
186783232 GT-AG 0 1.000000099473604e-05 1301 rna-XM_015206946.2 33342827 4 108909555 108910855 Solanum pennellii 28526 GAG|GTAAGTGTTT...TCTTTCTTACTC/TTCTTTCTTACT...TGTAG|GAT 2 1 32.092
186783233 GT-AG 0 1.000000099473604e-05 77 rna-XM_015206946.2 33342827 5 108909372 108909448 Solanum pennellii 28526 GAG|GTAAGACTAT...TTATTCTTGACC/TTATTCTTGACC...GTCAG|AGG 0 1 34.361
186783234 GT-AG 0 0.0141347849523639 144 rna-XM_015206946.2 33342827 6 108908970 108909113 Solanum pennellii 28526 GAG|GTATGTTTCT...TTCTTCTTTTTT/TGTAGCATGACA...GCCAG|ACT 0 1 39.884
186783235 GT-AG 0 0.0001144666087881 102 rna-XM_015206946.2 33342827 7 108908679 108908780 Solanum pennellii 28526 AAA|GTAAGCGCGT...TGTTCTTTAATG/TTTAAGTTCATT...GACAG|CTT 0 1 43.931
186783236 GT-AG 0 0.0001593304222294 1129 rna-XM_015206946.2 33342827 8 108905345 108906473 Solanum pennellii 28526 GAG|GTATTGCTTA...CTTTGCTTACTT/ACTTTGCTTACT...TGCAG|GAT 0 1 91.137
186783237 GT-AG 0 1.000000099473604e-05 984 rna-XM_015206946.2 33342827 9 108904151 108905134 Solanum pennellii 28526 GAG|GTAAGCAAAT...TTGCTTTTATCT/GTAATTCTAATT...TACAG|GTC 0 1 95.633

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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]);