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 = 15858447

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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
85341174 GA-TG 0 1.000000099473604e-05 2547 Gobar.A01G045600.1.v1.1 15858447 1 4506390 4508936 Gossypium barbadense 3634 GGA|GATGGTGCAA...TCTCTTTTATTT/ATATTATTCACT...GCTTG|ATT 0 1 28.554
85341175 GT-AG 0 1.6965597884947163e-05 774 Gobar.A01G045600.1.v1.1 15858447 2 4504104 4504877 Gossypium barbadense 3634 GAG|GTGCATTGTT...TGTGTTTTAATT/TGTGTTTTAATT...ATTAG|GCT 0 1 58.916
85341176 GA-AG 0 1.000000099473604e-05 177 Gobar.A01G045600.1.v1.1 15858447 3 4503614 4503790 Gossypium barbadense 3634 TTA|GAGAATGTTC...CACTCTTTCACC/CACTCTTTCACC...CATAG|ATG 1 1 65.201
85341177 GT-AG 0 0.0339625223399261 314 Gobar.A01G045600.1.v1.1 15858447 4 4502791 4503104 Gossypium barbadense 3634 AAG|GTACACTTTT...TGTTTTTTATTT/TTGTTTTTTATT...ATTAG|GAG 0 1 75.422
85341178 GT-AG 0 1.000000099473604e-05 211 Gobar.A01G045600.1.v1.1 15858447 5 4502013 4502223 Gossypium barbadense 3634 AAG|GTTCTTTCGC...GAACTTATAATA/AAAGAACTTATA...TGCAG|GAG 0 1 86.807
85341179 GT-AG 0 0.0100833679350907 134 Gobar.A01G045600.1.v1.1 15858447 6 4501339 4501472 Gossypium barbadense 3634 GAG|GTATATATCC...TTATTTTTATTT/TTTATTTTTATT...TGAAG|GCA 0 1 97.651

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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]);