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 = 31249557

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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
174208879 GT-AG 0 0.0008117515873491 61 rna-FME351_LOCUS8 31249557 1 41496 41556 Rotaria socialis 392032 CAA|GTATGTGAAA...TTCTTTTTAATC/TTCTTTTTAATC...TTTAG|ACC 2 1 8.008
174208880 GT-AG 0 0.9565220082627728 54 rna-FME351_LOCUS8 31249557 2 41671 41724 Rotaria socialis 392032 GAA|GTATACATTT...AATTCTTTATAA/TTCTTTATAATT...TACAG|ATC 2 1 19.419
174208881 GT-AG 0 1.4229903704107876e-05 150 rna-FME351_LOCUS8 31249557 3 41828 41977 Rotaria socialis 392032 TCG|GTAAATTACT...TATATTTTCACT/TATATTTTCACT...TTCAG|GGC 0 1 29.73
174208882 GT-AG 0 1.000000099473604e-05 52 rna-FME351_LOCUS8 31249557 4 42028 42079 Rotaria socialis 392032 AAG|GTAAAACGAG...ATCATTTTGTCA/CATTTTGTCAAC...TTTAG|ATA 2 1 34.735
174208883 GT-AG 0 5.682216482002648e-05 121 rna-FME351_LOCUS8 31249557 5 42232 42352 Rotaria socialis 392032 TCG|GTAGGATTTT...CATTACTTAACC/CTTAACCTAATT...TTTAG|GTA 1 1 49.95
174208884 GT-AG 0 1.4299298635944615e-05 49 rna-FME351_LOCUS8 31249557 6 42463 42511 Rotaria socialis 392032 TCA|GTAAATAAAA...TTCTTTTCAATT/ATTCTTTTCAAT...TTTAG|CAT 0 1 60.961
174208885 GT-AG 0 8.455841154195008e-05 56 rna-FME351_LOCUS8 31249557 7 42588 42643 Rotaria socialis 392032 CTA|GTAAATTAGT...CAATATTTAATA/TTAATATTGATT...TTTAG|CTT 1 1 68.569

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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]);