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 = 5879259

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Suggested facets: phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
29939556 GT-AG 0 1.000000099473604e-05 1602 rna-XM_014948847.1 5879259 3 230472 232073 Calidris pugnax 198806 CAG|GTGAGAGACT...TTTTTTTTATTT/CTTTTTTTTATT...TCCAG|AGG 2 1 26.889
29939557 GT-AG 0 1.000000099473604e-05 53182 rna-XM_014948847.1 5879259 4 232207 285388 Calidris pugnax 198806 AAG|GTGAGTCCCT...CACCCCGTGCCC/CGTGGTCCCACA...TCCAG|GGC 0 1 41.667
29939558 GT-AG 0 1.000000099473604e-05 404 rna-XM_014948847.1 5879259 5 285488 285891 Calidris pugnax 198806 CCG|GTGAGTCCCC...AAACCTGTATTT/GAAAGTGTGAAA...GGTAG|GAT 0 1 52.667
29939559 GT-AG 0 1.000000099473604e-05 108782 rna-XM_014948847.1 5879259 6 286063 394844 Calidris pugnax 198806 CCG|GTGAGTCCCC...CTCTCCTTGTCC/TAGCACCTCACC...TCCAG|GGT 0 1 71.667
29939560 GT-AG 0 1.000000099473604e-05 1023 rna-XM_014948847.1 5879259 7 394891 395913 Calidris pugnax 198806 CGG|GTGAGTGCAG...TTATCTTTTGCA/GGGATGCTCAGC...CCCAG|ATT 1 1 76.778
29939561 GT-AG 0 1.000000099473604e-05 19665 rna-XM_014948847.1 5879259 8 396031 415695 Calidris pugnax 198806 TGG|GTAAGGAGCA...CACTCCTTTCTC/ACCCCTCTCACT...CCAAG|GTT 1 1 89.778
29939581 GT-AG 0 1.000000099473604e-05 203 rna-XM_014948847.1 5879259 1 229190 229392 Calidris pugnax 198806 CAG|GTGAGGACCC...TGTCCCTTCTTC/TGTGATTTCATT...CCAAG|GAA   0 2.889
29939582 GT-AG 0 1.000000099473604e-05 857 rna-XM_014948847.1 5879259 2 229469 230325 Calidris pugnax 198806 TGG|GTAAGTGCCT...TGTCCCTTGGTC/CTGGGACTGACC...CACAG|GGC   0 11.333

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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]);