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 = 21894347

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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
118584022 GT-AG 0 1.000000099473604e-05 1777 rna-XM_016221920.1 21894347 1 31844817 31846593 Miniopterus natalensis 291302 TAA|GTAAGTGCCA...AATATATTAACT/AATATATTAACT...TACAG|ACA 1 1 3.299
118584023 GT-AG 0 4.595020155255529e-05 826 rna-XM_016221920.1 21894347 2 31846770 31847595 Miniopterus natalensis 291302 TTG|GTATGGAAAC...CAAATCTTAATT/TGTTTTTTCACT...TACAG|AAT 0 1 7.664
118584024 GT-AG 0 1.000000099473604e-05 2485 rna-XM_016221920.1 21894347 3 31847674 31850158 Miniopterus natalensis 291302 GAG|GTAAGTAGAA...TGTTCCTTTTCA/TTCCTTTTCATT...AATAG|TTC 0 1 9.598
118584025 GT-AG 0 1.000000099473604e-05 3709 rna-XM_016221920.1 21894347 4 31850245 31853953 Miniopterus natalensis 291302 AAG|GTAATTGCTT...AAATTTTTCATT/AAATTTTTCATT...TTTAG|GGT 2 1 11.731
118584026 GT-AG 0 1.000000099473604e-05 1000 rna-XM_016221920.1 21894347 5 31854187 31855186 Miniopterus natalensis 291302 AAG|GTGAGATGTT...TTCCCTTTATTT/TCATTACTTATT...TATAG|AAA 1 1 17.51
118584027 GT-AG 0 1.000000099473604e-05 2297 rna-XM_016221920.1 21894347 6 31858349 31860645 Miniopterus natalensis 291302 CAG|GTAGGTCAAT...TGTTCCATATCT/TATATGTTTACA...TTCAG|GTG 1 1 95.933
118584028 GT-AG 0 5.713278334961502e-05 5079 rna-XM_016221920.1 21894347 7 31860794 31865872 Miniopterus natalensis 291302 AGA|GTAAGTATTT...TTATTATTAATC/TTATTATTAATC...TGCAG|CAA 2 1 99.603

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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]);