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)

8 rows where transcript_id = 33342858

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Suggested facets: dinucleotide_pair, 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
186783655 GT-AG 0 1.000000099473604e-05 501 rna-XM_015205555.2 33342858 2 104820513 104821013 Solanum pennellii 28526 GAG|GTGGGTTAGG...GTTTCCTTGTTT/TAAAGCCTCATC...TGCAG|TGT 0 1 18.223
186783656 GT-AG 0 1.000000099473604e-05 118 rna-XM_015205555.2 33342858 3 104821140 104821257 Solanum pennellii 28526 CAG|GTGGGAAGGA...GTTCTCTTATGG/TGTTAACTAATA...TGTAG|GAC 0 1 21.403
186783657 GT-AG 0 1.4187324474078784e-05 458 rna-XM_015205555.2 33342858 4 104821456 104821913 Solanum pennellii 28526 AAG|GTCTTTCACT...CCATCCATATTT/AGCCGTCTCACC...GCCAG|TTA 0 1 26.401
186783658 GT-AG 0 1.000000099473604e-05 81 rna-XM_015205555.2 33342858 5 104822142 104822222 Solanum pennellii 28526 AAG|GTGCTACTGA...TGTTCATTAGTT/ATTAGTTTGATT...TGCAG|GAA 0 1 32.155
186783659 GT-AG 0 1.000000099473604e-05 374 rna-XM_015205555.2 33342858 6 104823348 104823721 Solanum pennellii 28526 CAG|GTGCTATTTT...CTAACCTTAATC/TCTTCTCTAACC...TGCAG|GAG 0 1 60.55
186783660 GT-AG 0 1.000000099473604e-05 1889 rna-XM_015205555.2 33342858 7 104824010 104825898 Solanum pennellii 28526 CAG|GTAAACAATA...TCTTCTTCAGCT/CTCTTCTTCAGC...TATAG|GTT 0 1 67.819
186783661 GC-AG 0 1.000000099473604e-05 1539 rna-XM_015205555.2 33342858 8 104826344 104827882 Solanum pennellii 28526 CAG|GCAAGTCTTT...GTTATCTAAATT/TATTGATTCATT...TGCAG|AGA 1 1 79.051
186797472 GT-AG 0 1.1724882307545113e-05 979 rna-XM_015205555.2 33342858 1 104819000 104819978 Solanum pennellii 28526 ACT|GTGAGTTATT...TATTTTTTAGTA/CTATTTTTTAGT...GATAG|ACA   0 5.124

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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]);