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 = 30042536

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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
168262355 GT-AG 0 5.626712271289233e-05 83 gene-PINS_000086 30042536 1 230320 230402 Pythium insidiosum 114742 TCG|GTGTGTGTGT...GATGTCTTGACG/GATGTCTTGACG...CACAG|GAC 1 1 4.762
168262356 GT-AG 0 0.0001421989884497 74 gene-PINS_000086 30042536 2 229791 229864 Pythium insidiosum 114742 GAG|GTAACACGTG...CATTGCTTAACG/CATTGCTTAACG...CGCAG|AAA 0 1 37.1
168262357 GT-AG 0 0.0003855393984006 59 gene-PINS_000086 30042536 3 229469 229527 Pythium insidiosum 114742 GAG|GTATTTGGTG...GTGCATTTGATT/GTGCATTTGATT...CTCAG|ATA 2 1 55.792
168262358 GT-AG 0 1.000000099473604e-05 61 gene-PINS_000086 30042536 4 229289 229349 Pythium insidiosum 114742 GAG|GTTGGTGTTA...GTCGCTTTATTT/TGGAGACTAATC...TGTAG|CTG 1 1 64.25
168262359 GT-AG 0 0.0002594909711943 57 gene-PINS_000086 30042536 5 229081 229137 Pythium insidiosum 114742 CAA|GTACGTACGT...AGTCCCTTACTG/GAGTCCCTTACT...ACCAG|GCG 2 1 74.982
168262360 GT-AG 0 0.0421430579668198 66 gene-PINS_000086 30042536 6 228963 229028 Pythium insidiosum 114742 GAG|GTATCTCAAC...TATGCTTTTGCG/TTTTGCGTTACG...GGCAG|ATT 0 1 78.678
168262361 GT-AG 0 1.000000099473604e-05 60 gene-PINS_000086 30042536 7 228810 228869 Pythium insidiosum 114742 GAG|GTGAGAAGCT...TTTTTGTTGATG/TTTTTGTTGATG...GTCAG|GGC 0 1 85.288
168262362 GT-AG 0 1.000000099473604e-05 96 gene-PINS_000086 30042536 8 228616 228711 Pythium insidiosum 114742 GAG|GTGATGCCGA...TTTGGTGTATCT/TATCTTCCGATC...CGCAG|AAA 2 1 92.253

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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]);