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 = 24419470

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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
133391761 GT-AG 0 4.387897536661339e-05 8722 rna-XM_014914394.1 24419470 2 1485217 1493938 Octopus bimaculoides 37653 GTT|GTAAGTATAT...TATTCTTTTTCT/TCATTTTTCACC...CACAG|TGT 0 1 33.499
133391762 GT-AG 0 1.000000099473604e-05 2691 rna-XM_014914394.1 24419470 3 1494041 1496731 Octopus bimaculoides 37653 TCA|GTAAGAACCT...TTTTTTTTAAAT/TTTTTTTTAAAT...GACAG|GTG 0 1 39.851
133391763 GT-AG 0 1.000000099473604e-05 2166 rna-XM_014914394.1 24419470 4 1496865 1499030 Octopus bimaculoides 37653 TGG|GTAAGTTAGA...TATTTTTTATAT/ATATTTTTTATA...AATAG|GTG 1 1 48.132
133391764 GT-AG 0 1.000000099473604e-05 1610 rna-XM_014914394.1 24419470 5 1499095 1500704 Octopus bimaculoides 37653 TGA|GTGAGTAATT...TTGATTTTAGTT/TAAATGTTGATT...TTTAG|TTA 2 1 52.117
133391765 GT-AG 0 1.000000099473604e-05 19910 rna-XM_014914394.1 24419470 6 1500827 1520736 Octopus bimaculoides 37653 CAG|GTGAGTAAGC...TTTCTCTTCTTT/ATGTATTTCATT...TCCAG|GTG 1 1 59.714
133391772 GT-AG 0 3.583769043556053e-05 5914 rna-XM_014914394.1 24419470 1 1479127 1485040 Octopus bimaculoides 37653 TTA|GTAAGTATAC...TTGTTTTTATAT/TGTTTTTTCATA...TATAG|AAT   0 24.533

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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]);