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)

6 rows where transcript_id = 31411926

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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
174865960 GT-AG 0 3.989212338668228e-05 53 rna-NCT539_LOCUS520 31411926 1 2731653 2731705 Rotaria sp. silwood2 2762512 CAA|GTAAATCATT...TTTCTTTTAGTG/TTTTTGTTCAAA...TTCAG|ATG 1 1 3.553
174865961 GT-AG 0 0.0002375500108054 63 rna-NCT539_LOCUS520 31411926 2 2731457 2731519 Rotaria sp. silwood2 2762512 AAA|GTAACAAAAA...ATTTCTTTATTA/TATTTCTTTATT...TCTAG|TTT 2 1 8.579
174865962 GT-AG 0 0.0003972771784596 50 rna-NCT539_LOCUS520 31411926 3 2730743 2730792 Rotaria sp. silwood2 2762512 GAA|GTAAATTCAA...AAATTCTTATTT/TTCTTATTTATT...TATAG|CCA 0 1 33.673
174865963 GT-AG 0 1.000000099473604e-05 66 rna-NCT539_LOCUS520 31411926 4 2729799 2729864 Rotaria sp. silwood2 2762512 AAG|GTAAATAAAT...TTGCTTTTATAT/TTTGCTTTTATA...TTTAG|TCC 2 1 66.856
174865964 GT-AG 0 1.000000099473604e-05 46 rna-NCT539_LOCUS520 31411926 5 2729663 2729708 Rotaria sp. silwood2 2762512 TAG|GTAAATACTT...ATTTTCATATTT/AATATTTTCATA...TCTAG|TCA 2 1 70.257
174865965 GT-AG 0 1.000000099473604e-05 47 rna-NCT539_LOCUS520 31411926 6 2729556 2729602 Rotaria sp. silwood2 2762512 AAG|GTAAAAATTT...TTATTTTGAATT/TTTGAATTAATT...TTTAG|TCA 2 1 72.525

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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]);