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 = 32739508

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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
183117235 GT-AG 0 1.000000099473604e-05 725 rna-XM_011075316.2 32739508 2 8302312 8303036 Sesamum indicum 4182 GAG|GTTTGTGAAT...GTCTTTTTGAAA/ATTTGACTGATA...TTCAG|TTA 0 1 49.194
183117236 GT-AG 0 3.83632928938006e-05 594 rna-XM_011075316.2 32739508 3 8301560 8302153 Sesamum indicum 4182 CAG|GTACTTTGAA...CTGCTTTTCATT/CTGCTTTTCATT...AACAG|TGA 2 1 53.913
183117237 GT-AG 0 1.000000099473604e-05 448 rna-XM_011075316.2 32739508 4 8300286 8300733 Sesamum indicum 4182 AAG|GTCCGTGTTC...AATTCTTTATCT/TAATTCTTTATC...TGTAG|TTA 0 1 78.584
183117238 GT-AG 0 0.3484540927103655 412 rna-XM_011075316.2 32739508 5 8299727 8300138 Sesamum indicum 4182 GAA|GTATGCTTTT...CTGACTTTTGTT/ATACAACTGACT...TGCAG|AAA 0 1 82.975
183117239 GT-AG 0 1.000000099473604e-05 95 rna-XM_011075316.2 32739508 6 8299314 8299408 Sesamum indicum 4182 AAG|GTTAGTTGGT...ATTTTTTTGCCT/TTTTGCCTAACT...TGCAG|AAC 0 1 92.473
183117240 GT-AG 0 1.000000099473604e-05 278 rna-XM_011075316.2 32739508 7 8298976 8299253 Sesamum indicum 4182 GAG|GTGATCCGCA...AAGTTTTTGCAT/AGTTTTTGCATT...TATAG|GTA 0 1 94.265
183125178 GT-AG 0 0.0007261343010525 922 rna-XM_011075316.2 32739508 1 8304574 8305495 Sesamum indicum 4182 TTG|GTACGCCTCT...TTTTCTATACTC/TCTATACTCATT...TGCAG|TGA   0 4.57

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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]);