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 = 7738633

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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
40790494 GT-AG 0 1.000000099473604e-05 83 rna-XM_009879932.1 7738633 1 155084 155166 Charadrius vociferus 50402 CGG|GTCTGGGAAG...CACTCCCAAGCC/CATCCCGTCAAA...CGCAG|GAT 1 1 0.648
40790495 GT-AG 0 1.000000099473604e-05 600 rna-XM_009879932.1 7738633 2 154368 154967 Charadrius vociferus 50402 TCC|GTAAGGCTCA...TTCTCCATCATT/TTCTCCATCATT...ACTAG|ATG 0 1 11.389
40790496 GT-AG 0 1.000000099473604e-05 13370 rna-XM_009879932.1 7738633 3 140854 154223 Charadrius vociferus 50402 CTG|GTTTGTACAG...ACTGCCTTGTCC/GCTTGTTTCAGA...TTTAG|GTT 0 1 24.722
40790497 GT-AG 0 1.000000099473604e-05 359 rna-XM_009879932.1 7738633 4 140287 140645 Charadrius vociferus 50402 CAG|GTAAACAGTT...TTGCTTCTAACT/CTCTTTCTCACT...TTCAG|GTG 1 1 43.981
40790498 GT-AG 0 1.000000099473604e-05 85 rna-XM_009879932.1 7738633 5 140031 140115 Charadrius vociferus 50402 AAG|GTACTGTGTG...TTACTTTCAATT/CTTGTAGTTACT...TCTAG|GTG 1 1 59.815
40790499 GT-AG 0 1.000000099473604e-05 963 rna-XM_009879932.1 7738633 6 138978 139940 Charadrius vociferus 50402 ATG|GTAAGTGGGA...GTTGTGTTGATT/GTTGTGTTGATT...TTTAG|GGG 1 1 68.148
40790500 GT-AG 0 1.000000099473604e-05 1091 rna-XM_009879932.1 7738633 7 137645 138735 Charadrius vociferus 50402 CAG|GTAAGTCTGA...TGGGTCTCACCA/GTGGGTCTCACC...TCCAG|GTG 0 1 90.556

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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]);