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 = 11363934

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
62711192 GT-AG 0 4.287984594211782e-05 96 rna-GPM918_LOCUS4 11363934 1 50807 50902 Didymodactylos carnosus 1234261 GAA|GTAAGTTCAA...TTTTTCTTGTTG/TATATATTAATA...ATTAG|ACA 0 1 31.329
62711193 GT-AG 0 0.4737399152662653 62 rna-GPM918_LOCUS4 11363934 2 50535 50596 Didymodactylos carnosus 1234261 GAA|GTATTTTTAA...GTATTTTTAGTT/GTTTTTCTAAAT...TGTAG|ACA 0 1 41.119
62711194 GT-AG 0 1.000000099473604e-05 64 rna-GPM918_LOCUS4 11363934 3 50360 50423 Didymodactylos carnosus 1234261 CAT|GTAGGAGAAA...TTATTTTTAATA/TATTTATTTATT...TATAG|GAT 0 1 46.294
62711195 GT-AG 0 1.000000099473604e-05 74 rna-GPM918_LOCUS4 11363934 4 50100 50173 Didymodactylos carnosus 1234261 AAA|GTAAAAATGA...TATTTCTTGTAC/CTTGTACTCATT...TTTAG|TTA 0 1 54.965
62711196 GT-AG 0 0.0507954145403989 851 rna-GPM918_LOCUS4 11363934 5 49165 50015 Didymodactylos carnosus 1234261 TTG|GTATGTTTTT...CTATTTTTAGAT/ACTATTTTTAGA...TTTAG|ACT 0 1 58.881
62711197 GT-AG 0 1.000000099473604e-05 88 rna-GPM918_LOCUS4 11363934 6 49011 49098 Didymodactylos carnosus 1234261 TTG|GTAAGTCCCT...CATTTTTTAATT/TTTTTGTTCATT...GTAAG|GAC 0 1 61.958
62711198 GT-AG 0 0.0003599275999669 77 rna-GPM918_LOCUS4 11363934 7 48571 48647 Didymodactylos carnosus 1234261 ACG|GTATAAATTA...TTTTTGTTATTG/CTTTTTGTTATT...TTTAG|TGG 0 1 78.881
62711199 GT-AG 0 0.0001025301091327 83 rna-GPM918_LOCUS4 11363934 8 48353 48435 Didymodactylos carnosus 1234261 AAA|GTAAGTTGAA...ATCTTCTTAGAA/AATCTTCTTAGA...AACAG|ATT 0 1 85.175

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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]);