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)

7 rows where transcript_id = 34009306

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Suggested facets: dinucleotide_pair, score, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
190420757 GT-AG 0 1.7005042912268703e-05 5304 rna-XM_035357855.1 34009306 2 162826 168129 Stegodyphus dumicola 202533 CAG|GTTTGTATTA...GCCTTTTTGAAA/TTAAGTTTCATT...TTTAG|CAC 1 1 16.775
190420758 GT-AG 0 1.000000099473604e-05 11568 rna-XM_035357855.1 34009306 3 151069 162636 Stegodyphus dumicola 202533 ACT|GTAAGGAAAA...ATGTCTTTTTCA/TTAAGTTTCATT...TTCAG|CAC 1 1 34.39
190420759 GT-AG 0 1.000000099473604e-05 6703 rna-XM_035357855.1 34009306 4 144195 150897 Stegodyphus dumicola 202533 ACT|GTAAGGAAAA...TTCTCTTTAATT/TTTGTGCTAATA...TATAG|ACA 1 1 50.326
190420760 GT-AG 0 1.000000099473604e-05 11897 rna-XM_035357855.1 34009306 5 132226 144122 Stegodyphus dumicola 202533 CTG|GTGAATCAAA...ATATTAGTAGTT/GTTAAAATTATC...GGTAG|GTT 1 1 57.036
190420761 GT-AG 0 0.054282354354768 1295 rna-XM_035357855.1 34009306 6 130754 132048 Stegodyphus dumicola 202533 TTG|GTATGTTTTA...AAAATTTTATCT/TGTATATTTACA...TCCAG|ATT 1 1 73.532
190420762 GT-AG 0 1.396251658288701e-05 1268 rna-XM_035357855.1 34009306 7 129381 130648 Stegodyphus dumicola 202533 ATA|GTAAGGTTAT...TTTTTTTTATAT/TTTTTTTTTATA...TAAAG|GTT 1 1 83.318
190420767 GG-TC 0 2.941997938158873e-05 17050 rna-XM_035357855.1 34009306 1 168176 185225 Stegodyphus dumicola 202533 TTT|GGTGAGTTTT...TTTTACTTATTT/ATTTTACTTATT...ATTTC|GTT   0 13.607

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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]);