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)

6 rows where transcript_id = 14698714

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Suggested facets: dinucleotide_pair, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
78945729 GT-AG 0 0.0004771816936165 830 rna-XM_004289283.2 14698714 1 14049535 14050364 Fragaria vesca 57918 ATG|GTAAGCTCTT...TCTTTCTTACTG/TATTTACTAACT...TGCAG|CAT 1 1 40.85
78945730 GT-AG 0 0.0001356917824119 614 rna-XM_004289283.2 14698714 2 14048348 14048961 Fragaria vesca 57918 CTG|GTAATTTTCT...TCTGTTTTATTT/TTCTGTTTTATT...TGCAG|GTT 1 1 54.925
78945731 GT-AG 0 1.000000099473604e-05 85 rna-XM_004289283.2 14698714 3 14048090 14048174 Fragaria vesca 57918 ACG|GTACAAGCTC...CCTACTTTTCCT/ACAATACTAAGA...TGCAG|GAG 0 1 59.175
78945732 TG-CA 0 3.8379524748467855 954 rna-XM_004289283.2 14698714 4 14046614 14047567 Fragaria vesca 57918 GAA|TGATCCATAT...CTCATTTGGATT/TTCCGACTCATT...TTCCA|CAC 0 1 71.997
78945733 GT-AG 0 0.0001425452929661 663 rna-XM_004289283.2 14698714 5 14045338 14046000 Fragaria vesca 57918 AGG|GTAAGTTTTT...TTGTTCTTCACT/TTGTTCTTCACT...CACAG|ATG 1 1 87.055
78945734 GT-AG 0 0.0001349284932239 97 rna-XM_004289283.2 14698714 6 14045068 14045164 Fragaria vesca 57918 AAG|GTAACATTGG...GCATCCTCAGTG/TAAGTACTCATC...CCCAG|GAA 0 1 91.304

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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]);