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 = 11013784

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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
60947133 GT-AG 0 1.000000099473604e-05 1231 rna-XM_028535681.1 11013784 1 2593698 2594928 Dendronephthya gigantea 151771 CAG|GTTTGTATAA...ATTGTGTTGATA/ATTGTGTTGATA...TTTAG|TCC 2 1 3.057
60947134 GT-AG 0 1.000000099473604e-05 372 rna-XM_028535681.1 11013784 2 2592943 2593314 Dendronephthya gigantea 151771 AAG|GTATTGAGAT...ATCTTTTCAATG/CATCTTTTCAAT...TTCAG|AAG 1 1 12.424
60947135 GT-AG 0 1.000000099473604e-05 211 rna-XM_028535681.1 11013784 3 2589558 2589768 Dendronephthya gigantea 151771 ATG|GTAAGTTTTC...CTGCAATTAACA/CTGCAATTAACA...TAAAG|ATG 1 1 90.046
60947136 GT-AG 0 1.000000099473604e-05 220 rna-XM_028535681.1 11013784 4 2589165 2589384 Dendronephthya gigantea 151771 AAG|GTGATTATAT...CTCTTCTTGCCG/AATTACTTCAAT...TGTAG|AAA 0 1 94.277
60947137 GT-AG 0 0.0004219255952419 244 rna-XM_028535681.1 11013784 5 2588805 2589048 Dendronephthya gigantea 151771 TAG|GTAAACCTCA...GGCTCTTTAACT/CTTTTGTTTATT...TATAG|AGG 2 1 97.114
60947138 GT-AG 0 0.0099747844414169 329 rna-XM_028535681.1 11013784 6 2588412 2588740 Dendronephthya gigantea 151771 CAG|GTATGTTTCT...ACTTTTTTATTT/TACTTTTTTATT...TCTAG|CGA 0 1 98.679
60947139 GT-AG 0 1.000000099473604e-05 196 rna-XM_028535681.1 11013784 7 2588191 2588386 Dendronephthya gigantea 151771 AAG|GTGTGTAAAC...CTAATTTTATCA/TATATCCTAATT...TTCAG|GTC 1 1 99.291

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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]);