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)

5 rows where transcript_id = 15088627

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Suggested facets: score, 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
81573502 GT-AG 0 1.000000099473604e-05 6194 rna-XM_009814482.1 15088627 2 3798 9991 Gavia stellata 37040 TAG|GTCAGTAATG...TTTTTCTTAACA/TTTTTCTTAACA...TTAAG|GTG 1 1 24.763
81573503 GT-AG 0 1.000000099473604e-05 943 rna-XM_009814482.1 15088627 3 10156 11098 Gavia stellata 37040 GAG|GTAATATTTA...GTGTTCTTTTTT/AACAACATAAAT...GATAG|ATG 0 1 44.194
81573504 GT-AG 0 1.000000099473604e-05 1816 rna-XM_009814482.1 15088627 4 11217 13032 Gavia stellata 37040 CAG|GTGCTTCGTT...ACCCTTTTAGTA/GTATGTGTTACT...GGCAG|GGA 1 1 58.175
81573505 GT-AG 0 0.0001297285679718 444 rna-XM_009814482.1 15088627 5 13170 13613 Gavia stellata 37040 CAA|GTAAGTTTCA...TTCTTCTTGGTT/GATATACTGATT...GATAG|ATG 0 1 74.408
81573506 GT-AG 0 1.000000099473604e-05 1206 rna-XM_009814482.1 15088627 1 2408 3613 Gavia stellata 37040 CAG|GTTAGATCCC...AAAGTCTTAGCT/TGTTTTTGTATT...CACAG|ATA   0 9.005

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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]);