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)

8 rows where transcript_id = 29350696

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Suggested facets: dinucleotide_pair, score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
163479238 GT-AG 0 1.000000099473604e-05 519 rna-XM_034364974.1 29350696 1 6713782 6714300 Prunus dulcis 3755 AAG|GTGCGAGGAT...TATATTTTGATA/TATATTTTGATA...CTCAG|TTT 2 1 7.964
163479239 GC-AG 0 1.000000099473604e-05 39 rna-XM_034364974.1 29350696 2 6714520 6714558 Prunus dulcis 3755 TCG|GCCAAGTTCA...TGCGCTGCAGAC/GCGCTGCAGACG...CTAAG|ACA 2 1 12.518
163479240 GT-AG 0 1.000000099473604e-05 302 rna-XM_034364974.1 29350696 5 6715484 6715785 Prunus dulcis 3755 CAG|GTCATTACAA...GGTTTGTTCATT/GGTTTGTTCATT...TGTAG|GAT 0 1 31.691
163479241 GT-AG 0 0.0001499736306464 236 rna-XM_034364974.1 29350696 6 6716140 6716375 Prunus dulcis 3755 AAG|GTTTGTTTAG...TCCATTTTATTT/ATTATTTTCAAT...TCCAG|CTC 0 1 39.052
163479242 GT-AG 0 9.85809590218161e-05 154 rna-XM_034364974.1 29350696 7 6716614 6716767 Prunus dulcis 3755 CAG|GTATGATATT...ATCTTCATATTT/TGAATCTTCATA...TACAG|CTA 1 1 44.001
163479243 GT-AG 0 1.577748421038977e-05 154 rna-XM_034364974.1 29350696 8 6716933 6717086 Prunus dulcis 3755 CAG|GTATGAAGTT...CATGTCTCAACT/TGAATATTCAAT...TGCAG|CTA 1 1 47.432
163479244 GT-AG 0 1.000000099473604e-05 93 rna-XM_034364974.1 29350696 9 6719315 6719407 Prunus dulcis 3755 AAG|GTAATTAATT...TTTTCCTTGTTA/ACTGTATTGAGT...TTAAG|TTG 0 1 93.762
163479245 GT-AG 0 1.000000099473604e-05 141 rna-XM_034364974.1 29350696 10 6719551 6719691 Prunus dulcis 3755 GAG|GTCAGTTTTT...TTTCCCCTGATG/TCTTGGTTCATT...CGCAG|TGA 2 1 96.735

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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]);