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)

4 rows where transcript_id = 18666364

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Suggested facets: dinucleotide_pair, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
99589485 GT-AG 0 0.000439247682582 83 rna-XM_041157129.1 18666364 1 47564367 47564449 Juglans microcarpa x juglans regia 2249226 CAT|GTAAGCACTA...CATTCTTTATTC/TATTTTTTGAAT...CCCAG|AAT 0 1 4.192
99589486 TT-CC 0 1.000000099473604e-05 404 rna-XM_041157129.1 18666364 2 47563626 47564029 Juglans microcarpa x juglans regia 2249226 CTT|TTCCATGACT...GAAAATTTAATG/GTTTGATTAAAT...AACCC|ACC 1 1 12.754
99589487 GT-AG 0 4.293992321465159e-05 305 rna-XM_041157129.1 18666364 4 47560300 47560604 Juglans microcarpa x juglans regia 2249226 AAG|GTATGACTTT...TTTGCCTCATTC/GTTTGCCTCATT...AGCAG|GAC 2 1 89.456
99589488 GT-AG 0 0.0047484772769654 93 rna-XM_041157129.1 18666364 5 47560108 47560200 Juglans microcarpa x juglans regia 2249226 AAG|GTATTTTGGT...AATTACTTGACA/CAAAATTTCATG...TGTAG|CCC 2 1 91.972

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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]);