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)

6 rows where transcript_id = 19668002

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
105497706 GT-AG 0 0.0010895516100471 298 rna-KI688_001167 19668002 1 4160641 4160938 Linnemannia hyalina 64524 TGT|GTGTGTAATA...TACTCCTTACCC/ATACTCCTTACC...TCCAG|CCG 1 1 0.084
105497707 GT-AG 0 1.000000099473604e-05 96 rna-KI688_001167 19668002 2 4163277 4163372 Linnemannia hyalina 64524 TGG|GTAAGGAAAT...GACGTTTTAGTA/TTAGTATTCAAT...TATAG|CAA 2 1 49.285
105497708 GT-AG 0 1.2042551063296482e-05 123 rna-KI688_001167 19668002 3 4163455 4163577 Linnemannia hyalina 64524 GGG|GTAAGTTGAG...TCTTCATTGATT/TGTTTCTTCATT...AATAG|TTT 0 1 51.01
105497709 GT-AG 0 1.000000099473604e-05 119 rna-KI688_001167 19668002 4 4163834 4163952 Linnemannia hyalina 64524 AAG|GTAGAATTGT...CTTATATTAACT/CTTATATTAACT...TGTAG|GAT 1 1 56.397
105497710 GT-AG 0 4.3090872897371615e-05 107 rna-KI688_001167 19668002 5 4164476 4164582 Linnemannia hyalina 64524 AGA|GTAAGTCATG...CTTTCCTTCACT/CTTTCCTTCACT...TATAG|TTT 2 1 67.403
105497711 GT-AG 0 1.000000099473604e-05 309 rna-KI688_001167 19668002 6 4165986 4166294 Linnemannia hyalina 64524 AAA|GTGGGGGGAC...GAGATTTGGAAG/GAGAGCATGATG...CCTAG|GAG 1 1 96.928

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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]);