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 = 31282373

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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
174343142 GT-AG 0 0.0013990504466831 54 rna-JXQ802_LOCUS20 31282373 1 90287 90340 Rotaria sordida 392033 AAG|GTATATAATT...AATTTTTTGAAT/AATTTTTTGAAT...GTTAG|AAT 1 1 11.817
174343143 GT-AG 0 0.0411507132931635 240 rna-JXQ802_LOCUS20 31282373 2 90399 90638 Rotaria sordida 392033 TGA|GTATGTTTGA...TTAATTTTTATA/TTAATTTTTATA...TTTAG|TGA 2 1 16.544
174343144 GT-AG 0 1.000000099473604e-05 49 rna-JXQ802_LOCUS20 31282373 3 90812 90860 Rotaria sordida 392033 TAG|GTAAATATCT...CAGAATATAATA/CAGAATATAATA...AATAG|GTT 1 1 30.644
174343145 GT-AG 0 0.0063989043420603 124 rna-JXQ802_LOCUS20 31282373 4 90968 91091 Rotaria sordida 392033 CAG|GTATTTTTTT...TTAAATTTAATT/TTAAATTTAATT...TATAG|GAA 0 1 39.364
174343146 GT-AG 0 3.0381491637971124e-05 1053 rna-JXQ802_LOCUS20 31282373 5 91181 92233 Rotaria sordida 392033 TTT|GTAAGTGTTA...ATCGACTTAAAA/AATCGACTTAAA...TTTAG|ACC 2 1 46.618
174343147 GT-AG 0 1.000000099473604e-05 77 rna-JXQ802_LOCUS20 31282373 6 92435 92511 Rotaria sordida 392033 AGA|GTAAAAATAA...TTATTTTTATTT/TTTATTTTTATT...TTTAG|AAG 2 1 62.999
174343148 GT-AG 0 0.0001570542702332 61 rna-JXQ802_LOCUS20 31282373 7 92658 92718 Rotaria sordida 392033 CAC|GTTTGTATCT...ATAAATTTAATT/ATAAATTTAATT...TCTAG|AAA 1 1 74.898
174343149 GT-AG 0 1.000000099473604e-05 55 rna-JXQ802_LOCUS20 31282373 8 92832 92886 Rotaria sordida 392033 TTG|GTAAAGACAA...AATTTCTTATCT/CAATTTCTTATC...AATAG|CAA 0 1 84.108

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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]);