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 = 27150996

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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
151208878 GT-AG 0 0.000106042541898 3909 rna-XM_020718535.1 27150996 1 304796 308704 Phalaenopsis equestris 78828 AAG|GTAACATGCT...ATATTATTAATT/ATATTATTAATT...TGTAG|ATC 1 1 29.702
151208879 GT-AG 0 1.000000099473604e-05 351 rna-XM_020718535.1 27150996 2 308769 309119 Phalaenopsis equestris 78828 AGG|GTAATTAGTT...AAATATTTGATC/AAATATTTGATC...TTTAG|GTG 2 1 38.003
151208880 GT-AG 0 0.0023078201124397 1310 rna-XM_020718535.1 27150996 3 309188 310497 Phalaenopsis equestris 78828 TTG|GTATGTATTC...TTCAGTTTAACT/TTCAGTTTAACT...GTTAG|GTG 1 1 46.822
151208881 GT-AG 0 1.000000099473604e-05 337 rna-XM_020718535.1 27150996 4 310588 310924 Phalaenopsis equestris 78828 TAG|GTAAGCCAGC...TAAGCCTTCCTA/AAATGACTGACT...TGTAG|CGA 1 1 58.495
151208882 GT-AG 0 0.0001524314433048 8385 rna-XM_020718535.1 27150996 5 311056 319440 Phalaenopsis equestris 78828 AAG|GTATGTATGT...ATTTTTTTTTCT/TTGTTACTAATT...TATAG|AAA 0 1 75.486
151208883 GT-AG 0 0.0001701551495267 510 rna-XM_020718535.1 27150996 6 319588 320097 Phalaenopsis equestris 78828 GGG|GTAGGCCATC...TATTTTTTATCC/TATTTATTTATT...TGCAG|GTT 0 1 94.553

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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]);