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 = 8855911

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
47813282 GT-AG 0 1.000000099473604e-05 83 rna-XM_027267110.1 8855911 1 33036490 33036572 Coffea arabica 13443 GCG|GTGAGCAGCA...ATACTCTTACCA/AATACTCTTACC...ACAAG|CTA 1 1 4.685
47813283 GT-AG 0 1.000000099473604e-05 466 rna-XM_027267110.1 8855911 2 33036930 33037395 Coffea arabica 13443 CCG|GTGGGTTTCA...TGTTCCTTTGCT/AAATTGTTAACA...GGAAG|AGT 1 1 14.762
47813284 GT-AG 0 0.0005437764385076 289 rna-XM_027267110.1 8855911 3 33037543 33037831 Coffea arabica 13443 AGG|GTTTTTCTTC...GAACCTTTACCA/CGAACCTTTACC...TCTAG|GTC 1 1 18.911
47813285 GT-AG 0 8.984281150514256e-05 89 rna-XM_027267110.1 8855911 4 33038554 33038642 Coffea arabica 13443 AAG|GTAGTCGAGC...CTGCTCTTAACC/CTGCTCTTAACC...TCAAG|GTC 0 1 39.289
47813286 GT-AG 0 1.000000099473604e-05 50 rna-XM_027267110.1 8855911 5 33039196 33039245 Coffea arabica 13443 ATA|GTAAAACATC...GCTTTCTTCTCA/TTTCTTCTCACA...CGTAG|GAT 1 1 54.897
47813287 GT-AG 0 3.09643040718784e-05 376 rna-XM_027267110.1 8855911 6 33039684 33040059 Coffea arabica 13443 CCC|GTGATCCTCT...GTAATCTCGATA/ATATCTCTCACG...ATCAG|AAA 1 1 67.259

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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]);