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 = 15088610

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
81573356 GT-AG 0 1.000000099473604e-05 1034 rna-XM_009812010.1 15088610 1 423 1456 Gavia stellata 37040 AAA|GTGAGGTGCT...TATTCCTTTTCC/GTTTTGTTTATT...TTCAG|GTT 0 1 3.659
81573357 GC-AG 0 1.000000099473604e-05 2784 rna-XM_009812010.1 15088610 2 1634 4417 Gavia stellata 37040 CAG|GCAAGACAAT...TTATTCTTAATT/TTATTCTTAATT...TGTAG|GCG 0 1 15.65
81573358 GT-AG 0 4.442970691371077e-05 754 rna-XM_009812010.1 15088610 3 4649 5402 Gavia stellata 37040 GAG|GTAAACAGGC...GATGTTTTAACC/GATGTTTTAACC...TTAAG|TTC 0 1 31.301
81573359 GT-AG 0 1.000000099473604e-05 657 rna-XM_009812010.1 15088610 4 5548 6204 Gavia stellata 37040 CAG|GTAAGTAGCA...TGTGTCTTATTA/GTGTGTCTTATT...TTTAG|ATG 1 1 41.125
81573360 GT-AG 0 1.000000099473604e-05 1306 rna-XM_009812010.1 15088610 5 6646 7951 Gavia stellata 37040 AAG|GTAAAACTCA...GTTGTCTGACCT/AGTTGTCTGACC...TACAG|GTG 1 1 71.003
81573361 GT-AG 0 2.6785786413863315e-05 1198 rna-XM_009812010.1 15088610 6 8071 9268 Gavia stellata 37040 CTT|GTAAGTATTA...TCTGTTTTACAC/GTCTGTTTTACA...CACAG|GGT 0 1 79.065
81573362 GT-AG 0 1.000000099473604e-05 1048 rna-XM_009812010.1 15088610 7 9449 10496 Gavia stellata 37040 GGG|GTAGGTGAAC...TATATTTTATTT/CTATATTTTATT...TGAAG|ACC 0 1 91.26

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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]);