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)

5 rows where transcript_id = 17327680

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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
92593078 GT-AG 0 0.0085687314203142 52 rna-XM_020571322.1 17327680 1 500631 500682 Heterostelium album 2086695 GTG|GTATGCAAAT...AAGACTTTGACT/AAGACTTTGACT...CGAAG|TCG 1 1 21.147
92593079 GT-AG 0 0.0473626237993724 400 rna-XM_020571322.1 17327680 2 499949 500348 Heterostelium album 2086695 AAG|GTATCTCCAC...TTATTCATATTG/TTTATTCATATT...TTTAG|AAG 1 1 29.891
92593080 GT-AG 0 0.0049974265669876 73 rna-XM_020571322.1 17327680 3 499630 499702 Heterostelium album 2086695 ATG|GTATTTATTA...AATATGTTAACA/AATTAATTAATT...TATAG|TAA 1 1 37.519
92593081 GT-AG 0 0.0002884997051976 73 rna-XM_020571322.1 17327680 4 498062 498134 Heterostelium album 2086695 AAA|GTAAATATAT...TCTTTCTTAACT/TTCTTACTTACT...TATAG|TAT 2 1 83.876
92593082 GT-AG 0 0.0018389314153252 77 rna-XM_020571322.1 17327680 5 497827 497903 Heterostelium album 2086695 ATG|GTATGTTTAG...ACACTTTCAATC/TGGCTACTAATA...AATAG|CAA 1 1 88.775

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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]);