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)

8 rows where transcript_id = 29563914

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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
164839918 GT-AG 0 1.000000099473604e-05 3970 rna-XM_010087006.1 29563914 1 165 4134 Pterocles gutturalis 240206 GTG|GTGGGCACCG...TCTGCCTTCACC/TCTGCCTTCACC...CCTAG|TTC 0 1 11.383
164839919 GT-AG 0 1.000000099473604e-05 545 rna-XM_010087006.1 29563914 2 4224 4768 Pterocles gutturalis 240206 CAA|GTGAGTCCCG...ACCTCCCGGACC/GGCATCCTGAGG...CGCAG|GTG 2 1 22.277
164839920 GT-AG 0 1.000000099473604e-05 496 rna-XM_010087006.1 29563914 3 4916 5411 Pterocles gutturalis 240206 GAG|GTGAGGAGCC...GGACCCCTGACT/GGACCCCTGACT...GCCAG|CTA 2 1 40.269
164839921 GT-AG 0 1.000000099473604e-05 114 rna-XM_010087006.1 29563914 4 5530 5643 Pterocles gutturalis 240206 GAG|GTGGGTCCCA...GCCTCCATCACT/CTCCATCTCACC...TCCAG|CTG 0 1 54.712
164839922 GT-AG 0 1.000000099473604e-05 174 rna-XM_010087006.1 29563914 5 5711 5884 Pterocles gutturalis 240206 AGG|GTGAGGAGGG...GTCCCCTGAGCC/TGTCCCCTGAGC...TGCAG|AGC 1 1 62.913
164839923 GT-AG 0 1.000000099473604e-05 376 rna-XM_010087006.1 29563914 6 5929 6304 Pterocles gutturalis 240206 AAG|GTAAGAGCCA...GGGCCCTGGAAC/GGGTGCTCGAGC...TCCAG|CAC 0 1 68.299
164839924 GT-AG 0 1.000000099473604e-05 265 rna-XM_010087006.1 29563914 7 6353 6617 Pterocles gutturalis 240206 GTG|GTGAGTGTCC...TGCTCCTCACCC/CTGCTCCTCACC...TGCAG|GTG 0 1 74.174
164839925 GT-AG 0 1.000000099473604e-05 571 rna-XM_010087006.1 29563914 8 6690 7260 Pterocles gutturalis 240206 AAG|GTATGTGCCT...CAGTCTCTCCCG/AGTGGTTCCAGT...GGCAG|GTG 0 1 82.987

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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]);