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 = 10007599

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
55033776 GT-AG 0 1.000000099473604e-05 1026 rna-XM_008440615.2 10007599 2 2504352 2505377 Cucumis melo 3656 AAG|GTTCGAATTT...GCTCCCCTGACA/AACTTTGTAATT...TACAG|GTT 0 1 7.867
55033777 GT-AG 0 1.000000099473604e-05 109 rna-XM_008440615.2 10007599 3 2506451 2506559 Cucumis melo 3656 AGT|GTAAGAATGA...TGTTCCTAAATA/CTGTTCCTAAAT...TTCAG|GAA 2 1 50.497
55033778 GT-AG 0 0.0216214537078057 91 rna-XM_008440615.2 10007599 4 2506681 2506771 Cucumis melo 3656 AGA|GTATGCAATT...TTGGTTTCAACA/TTTGGTTTCAAC...TGCAG|TTT 0 1 55.304
55033779 GT-AG 0 1.000000099473604e-05 128 rna-XM_008440615.2 10007599 5 2507009 2507136 Cucumis melo 3656 GAG|GTAGAAAAAT...TTTTTCTAAAAG/ATTTTTCTAAAA...TTCAG|GTT 0 1 64.72
55033780 GT-AG 0 0.0011309634976448 113 rna-XM_008440615.2 10007599 6 2507287 2507399 Cucumis melo 3656 CAG|GTATTTATTA...TACCTCATAAAT/TCTCTGTTTACA...TGAAG|GTT 0 1 70.679
55033781 GT-AG 0 1.000000099473604e-05 83 rna-XM_008440615.2 10007599 7 2508039 2508121 Cucumis melo 3656 ATG|GTTAGTAATC...TGGTTCATGATT/TCTTGGTTCATG...TATAG|GGA 0 1 96.067
55036621 GT-AG 0 1.000000099473604e-05 132 rna-XM_008440615.2 10007599 1 2504135 2504266 Cucumis melo 3656 CAG|GTTTTAATAG...TATTATTTATAT/GTATTATTTATA...CTCAG|TTC   0 6.913

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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]);