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 = 26649247

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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
147771716 GT-AG 0 1.000000099473604e-05 112 PHUM608030-RA 26649247 1 2628489 2628600 Pediculus humanus 121224 AAA|GTCAGTAAAA...AATTTTTTGACA/ATTTTTTTTATT...TTCAG|GCT 0 1 5.601
147771717 GT-AG 0 1.000000099473604e-05 87 PHUM608030-RA 26649247 2 2628795 2628881 Pediculus humanus 121224 CGG|GTGAGATGAA...TTTTCTTCAACC/GTTTTCTTCAAC...TTCAG|GAT 2 1 16.255
147771718 GT-AG 0 0.119746139392757 69 PHUM608030-RA 26649247 3 2629078 2629146 Pediculus humanus 121224 AAA|GTAACTTTCT...TTACTTTTATTT/TTTTATTTTACT...TTTAG|GAA 0 1 27.018
147771719 GT-AG 0 0.016709865743869 81 PHUM608030-RA 26649247 4 2629451 2629531 Pediculus humanus 121224 ATA|GTATGTATTT...AAAATCTTATAA/ACAGTATTAACT...TTTAG|CAA 1 1 43.712
147771720 GT-AG 0 3.998630067238389e-05 79 PHUM608030-RA 26649247 5 2629808 2629886 Pediculus humanus 121224 TTC|GTAAGTTCAA...TGAGTTTGAATT/TTGAGTTTGAAT...TATAG|ATA 1 1 58.869
147771721 GT-AG 0 1.000000099473604e-05 75 PHUM608030-RA 26649247 6 2630195 2630269 Pediculus humanus 121224 CAG|GTAAAAAACA...ATTTTTTTAACA/ATTTTTTTAACA...TCCAG|CAA 0 1 75.783
147771722 GT-AG 0 0.0001882125512521 77 PHUM608030-RA 26649247 7 2630508 2630584 Pediculus humanus 121224 GAA|GTATGAATAG...GATTTTTTATAT/GGATTTTTTATA...TACAG|GAG 1 1 88.852
147771723 GT-AG 0 1.000000099473604e-05 132 PHUM608030-RA 26649247 8 2630714 2630845 Pediculus humanus 121224 AAT|GTGAGTATTT...ATTTATTTATTT/TATTTATTTACT...TACAG|TGA 1 1 95.936

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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]);