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 = 37928579

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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
209469847 GT-AG 0 0.0272065381279053 107 rna-XM_017585629.1 37928579 2 11689864 11689970 Vigna angularis 3914 TTT|GTAATCTTCT...CATTTTTTATAT/TTTATATTAATT...TGCAG|CTC 1 1 9.922
209469848 GT-AG 0 2.3559177807833123e-05 209 rna-XM_017585629.1 37928579 3 11690080 11690288 Vigna angularis 3914 TTG|GTTTGTAGTC...ATTACTTTACTG/ACTTTACTGATG...TAAAG|GTT 2 1 12.861
209469849 GT-AG 0 0.0001944059073289 119 rna-XM_017585629.1 37928579 4 11690410 11690528 Vigna angularis 3914 ACG|GTGTGTTTCA...GTTATTTTACTC/ATTTTACTCACT...TTCAG|ATG 0 1 16.123
209469850 GT-AG 0 0.0651542972213432 1131 rna-XM_017585629.1 37928579 5 11691279 11692409 Vigna angularis 3914 ATG|GTATTTTTTT...TGTTTGTTAACC/TGTTTGTTAACC...GCCAG|GAT 0 1 36.344
209469851 GT-AG 0 4.0766782748783686e-05 1035 rna-XM_017585629.1 37928579 6 11694337 11695371 Vigna angularis 3914 TAG|GTATGACGCT...AGATTTTTAATG/AAATTTCTGACA...CCCAG|AAG 1 1 88.299
209482487 GT-AG 0 1.738115940187958e-05 569 rna-XM_017585629.1 37928579 1 11689021 11689589 Vigna angularis 3914 ATT|GTAATTGGCA...TATGTGTTAACA/TATGTGTTAACA...GTTAG|GGT   0 4.637

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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]);