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 = 33342853

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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
186783582 GT-AG 0 1.000000099473604e-05 140 rna-XM_027913526.1 33342853 1 49132574 49132713 Solanum pennellii 28526 AAG|GTACTGACTT...TGAGCCTGGACG/GCAGTTTTGAGC...GCAAG|AAT 1 1 4.879
186783583 GT-AG 0 0.0001719226464931 265 rna-XM_027913526.1 33342853 2 49131966 49132230 Solanum pennellii 28526 TTG|GTAGACAAAG...ATTGCTTTATTT/TTCTATCTAACA...TTCAG|TAA 2 1 13.688
186783584 GT-AG 0 1.000000099473604e-05 48 rna-XM_027913526.1 33342853 3 49131624 49131671 Solanum pennellii 28526 CTG|GTCTTATGAT...TATGCCATGATT/TAAGCACTGATA...CATAG|GTT 2 1 21.238
186783585 GT-AG 0 2.9303318310001625e-05 105 rna-XM_027913526.1 33342853 4 49129641 49129745 Solanum pennellii 28526 AAG|GTACTTAGAA...TCTTTTTTAATG/TCTTTTTTAATG...TATAG|GAG 2 1 69.466
186783586 GT-AG 0 1.000000099473604e-05 4377 rna-XM_027913526.1 33342853 5 49124354 49128730 Solanum pennellii 28526 AAA|GTAAGAGTTT...CTGGTTTTGAAC/CTGGTTTTGAAC...GGTAG|AAG 0 1 92.835
186783587 GT-AG 0 1.000000099473604e-05 699 rna-XM_027913526.1 33342853 6 49123601 49124299 Solanum pennellii 28526 AAG|GTAATCGCCT...TCTTGCTTAAAT/AATCTGCTCACT...TTTAG|CAA 0 1 94.222
186783588 GT-AG 0 0.0012653250253439 495 rna-XM_027913526.1 33342853 7 49123034 49123528 Solanum pennellii 28526 AAT|GTATGTCATG...GATTCGTTATAC/TATACACTGATA...TACAG|GTT 0 1 96.071

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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]);