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 = 17265334

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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
92255678 GT-AG 0 1.000000099473604e-05 228 rna-XM_021424464.1 17265334 1 4984799 4985026 Herrania umbratica 108875 CAG|GTTATTTAAC...TTGTTTTTGTTT/TGCATTCTTATT...ACTAG|TGA 1 1 25.317
92255679 GT-AG 0 10.674155251591626 873 rna-XM_021424464.1 17265334 2 4985404 4986276 Herrania umbratica 108875 GAG|GTATCTTTGT...CACTCCTTATTT/TTTTGTTTCACT...AATAG|GGT 0 1 36.428
92255680 GT-AG 0 1.000000099473604e-05 127 rna-XM_021424464.1 17265334 3 4987414 4987540 Herrania umbratica 108875 GAG|GTGTGAGATC...CCCTCTTTACTT/TACTTCCTCATT...TTCAG|CTT 0 1 69.938
92255681 GT-AG 0 0.0001545688710289 131 rna-XM_021424464.1 17265334 4 4987700 4987830 Herrania umbratica 108875 GTG|GTAATATTTT...TGGTCCTTAATT/CCTTAATTCATT...TGTAG|GTT 0 1 74.624
92255682 GT-AG 0 1.000000099473604e-05 117 rna-XM_021424464.1 17265334 5 4988147 4988263 Herrania umbratica 108875 CTG|GTAATTGCCT...GTTTGTTTACCC/TGTTTGTTTACC...TTCAG|GCT 1 1 83.938
92255683 GT-AG 0 0.001313971632518 136 rna-XM_021424464.1 17265334 6 4988335 4988470 Herrania umbratica 108875 CCG|GTATGTTGCT...TTCTCTTTCGTC/TTGCTTCTCATT...TCTAG|CAC 0 1 86.03
92255684 GT-AG 0 0.0012205666618519 742 rna-XM_021424464.1 17265334 7 4988594 4989335 Herrania umbratica 108875 AAG|GTATGCCCGT...TGGATGTTAACT/AATTTTATCATT...TACAG|ACT 0 1 89.655

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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]);