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 = 23844583

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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
129394268 GT-AG 0 1.000000099473604e-05 986 rna-XM_009466556.1 23844583 1 111261 112246 Nipponia nippon 128390 TTG|GTGAGTCTGT...CCCTCCCTGACC/CCCTCCCTGACC...TGCAG|GCA 2 1 1.577
129394269 GT-AG 0 2.5993826109311617e-05 71 rna-XM_009466556.1 23844583 2 110985 111055 Nipponia nippon 128390 AAG|GTGTGCATCG...CCCTCCTTCCCT/CATCCGCTCACC...TCCAG|CAC 0 1 24.662
129394270 GT-AG 0 1.000000099473604e-05 273 rna-XM_009466556.1 23844583 3 110517 110789 Nipponia nippon 128390 GAT|GTAAGGGGAG...GTCGCTTTCATG/GTCGCTTTCATG...TGCAG|TTT 0 1 46.622
129394271 GT-AG 0 1.647254828546739e-05 434 rna-XM_009466556.1 23844583 4 110050 110483 Nipponia nippon 128390 TTG|GTAAGTTCTG...GTGCCCTTTCCT/GACTTCTCCACA...TGCAG|GAT 0 1 50.338
129394272 GT-AG 0 1.000000099473604e-05 845 rna-XM_009466556.1 23844583 5 109096 109940 Nipponia nippon 128390 AAA|GTGAGTTGGG...ATGTCCTTTCCT/TCTGTTTTCAGC...GGCAG|GCT 1 1 62.613
129394273 GT-AG 0 5.91753031026723e-05 4173 rna-XM_009466556.1 23844583 6 104853 109025 Nipponia nippon 128390 CAG|GTACGTGTTC...AGCTCCTTACCG/CTGATTTTCACT...TGCAG|CAT 2 1 70.495
129394274 GT-AG 0 1.000000099473604e-05 308 rna-XM_009466556.1 23844583 7 104449 104756 Nipponia nippon 128390 TCA|GTAAGTGCTG...TTTGCTTTGCCC/GTTCCTGTCATT...CACAG|GGC 2 1 81.306

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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]);