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 = 32094437

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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
179201473 GT-AG 0 1.000000099473604e-05 46 rna-XM_012338358.1 32094437 1 619324 619369 Saprolegnia parasitica 101203 CAG|GTAGACGACA...CACGCCATCACC/CACGCCATCACC...TCTAG|CGA 1 1 1.479
179201474 GT-AG 0 6.036243329479463e-05 47 rna-XM_012338358.1 32094437 2 619688 619734 Saprolegnia parasitica 101203 ACG|GTACGCGCGT...TCTGTCCTATTG/GTCCTATTGAGC...GCTAG|TCG 1 1 12.418
179201475 GT-AG 0 0.0027459935193823 47 rna-XM_012338358.1 32094437 3 619878 619924 Saprolegnia parasitica 101203 CTG|GTATAGTTTA...TGGCCTTTAGAA/ATCATGCTAAAT...GATAG|GAA 0 1 17.337
179201476 GT-AG 0 0.0208760095756682 56 rna-XM_012338358.1 32094437 4 620143 620198 Saprolegnia parasitica 101203 CTT|GTACACCATT...TTTGTCTCAACA/TTGATATTGATC...AATAG|TGC 2 1 24.837
179201477 GT-AG 0 0.0001765618154993 51 rna-XM_012338358.1 32094437 5 620645 620695 Saprolegnia parasitica 101203 GAG|GTATTATGAA...ATTTCTTTGGAT/TGCGTATGCATT...CGTAG|TGC 1 1 40.179
179201478 GT-AG 0 0.0009423484646237 49 rna-XM_012338358.1 32094437 6 620908 620956 Saprolegnia parasitica 101203 ACC|GTACCACCAC...ATCTTCGGACCG/GATCTTCGGACC...AGTAG|GGA 0 1 47.472
179201479 GT-AG 0 0.0002144786307618 55 rna-XM_012338358.1 32094437 7 621153 621207 Saprolegnia parasitica 101203 TTG|GTACCGACGT...TCGGTTTTTTCT/TGGCGAGCTATC...TGTAG|GGG 1 1 54.214

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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]);