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 = 1893643

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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
10471591 GT-AG 0 0.0070567398273547 90 AMAM001410-RA 1893643 1 20170 20259 Anopheles maculatus 74869 ATG|GTACCGTACA...TCTTTGTTATCT/CTCTTTGTTATC...AAAAG|GTA 1 1 4.62
10471592 GT-AG 0 1.000000099473604e-05 70 AMAM001410-RA 1893643 2 19875 19944 Anopheles maculatus 74869 ATG|GTAAGTTAAT...TGGGCTTTAAAC/ATGGTTTTAAAA...TCTAG|TGG 1 1 8.413
10471593 GT-AG 0 1.1942271754368808e-05 203 AMAM001410-RA 1893643 3 18850 19052 Anopheles maculatus 74869 TAT|GTAAGTATAG...GTCATTTTATAG/GTGTAATTCAAT...CACAG|TGC 1 1 22.273
10471594 GT-AG 0 0.0001154307974132 109 AMAM001410-RA 1893643 5 17432 17540 Anopheles maculatus 74869 AAG|GTATGTGAGC...TTAACTTTGAAT/ATTAGCTTAACT...CTCAG|CTG 0 1 43.854
10471595 GT-AG 0 1.000000099473604e-05 327 AMAM001410-RA 1893643 6 16325 16651 Anopheles maculatus 74869 ACA|GTAGGTGCGT...GGATCTTTCGCA/ATCTTTCGCACG...AGCAG|GTG 0 1 57.006
10471596 GT-AG 0 4.206690373744688e-05 80 AMAM001410-RA 1893643 7 15807 15886 Anopheles maculatus 74869 TGT|GTAAGTAAAA...GTTGTTTTAACA/GTTGTTTTAACA...TCCAG|GTT 0 1 64.39

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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]);