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 = 10007514

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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
55032867 GT-AG 0 1.000000099473604e-05 91 rna-XM_008447383.2 10007514 1 7681394 7681484 Cucumis melo 3656 GTG|GTAATGCCTT...GCATTTTTATTT/TTTTATTTCATT...TCCAG|TGG 0 1 1.224
55032868 GT-AG 0 1.000000099473604e-05 4030 rna-XM_008447383.2 10007514 2 7681600 7685629 Cucumis melo 3656 AAG|GTAGAATGTC...TTCTTCTTCTTC/TGATAATTAATT...TGTAG|GGT 1 1 3.832
55032869 GT-AG 0 1.000000099473604e-05 422 rna-XM_008447383.2 10007514 3 7686952 7687373 Cucumis melo 3656 AAG|GTCGGTTTTT...CCACTTTTGACT/CCACTTTTGACT...CACAG|ACG 0 1 33.81
55032870 GT-AG 0 1.000000099473604e-05 138 rna-XM_008447383.2 10007514 4 7688894 7689031 Cucumis melo 3656 GAA|GTAAGTGTTT...TCCTCCTTCCAA/TTCTGTTTCATG...TTCAG|GGA 2 1 68.277
55032871 GT-AG 0 0.0037941857791893 129 rna-XM_008447383.2 10007514 5 7689157 7689285 Cucumis melo 3656 AAG|GTTTACTCTC...TTCCCCTTTTCC/ATTTTCCACATT...GCCAG|CAA 1 1 71.111
55032872 GT-AG 0 0.001451579234798 2202 rna-XM_008447383.2 10007514 6 7690143 7692344 Cucumis melo 3656 ATG|GTATTTGTCC...CTTATCTTGAGA/TTGCTTCTAAAT...TGCAG|AGC 0 1 90.544
55032873 GT-AG 0 1.000000099473604e-05 870 rna-XM_008447383.2 10007514 7 7692452 7693321 Cucumis melo 3656 GAG|GTAAGCCAGT...TAACTTTTAATT/AATAATCTAACT...TGCAG|GTT 2 1 92.971

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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]);