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 = 26649234

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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
147771635 GT-AG 0 1.000000099473604e-05 101 PHUM605250-RA 26649234 1 1795719 1795819 Pediculus humanus 121224 AAA|GTCAGTCAAA...TTTACTTTGAAT/TTATTTTTTATT...TTTAG|GTG 1 1 18.876
147771636 GT-AG 0 8.715262083629342e-05 88 PHUM605250-RA 26649234 2 1795464 1795551 Pediculus humanus 121224 CAG|GTTTGTTCAT...TTTATTTTATCT/TTTTATTTTATC...TATAG|ATA 0 1 27.259
147771637 GT-AG 0 1.18249030783399e-05 163 PHUM605250-RA 26649234 3 1795063 1795225 Pediculus humanus 121224 AAT|GTAAGTAACA...TTAATTTTAATA/TTAATTTTAATA...TTCAG|TGC 1 1 39.207
147771638 GT-AG 0 1.000000099473604e-05 342 PHUM605250-RA 26649234 4 1794571 1794912 Pediculus humanus 121224 GAG|GTAAGTAACA...ATTTCTTTATTA/GATTTCTTTATT...TGTAG|ATG 1 1 46.737
147771639 GT-AG 0 1.000000099473604e-05 90 PHUM605250-RA 26649234 5 1794240 1794329 Pediculus humanus 121224 TAG|GTTGTTATTA...TTTGTCGTAAAT/TAAATAATAATT...TTTAG|AAA 2 1 58.835
147771640 GT-AG 0 0.0002380537111399 83 PHUM605250-RA 26649234 6 1793872 1793954 Pediculus humanus 121224 AAA|GTAATCACTA...TTATTGTTAATT/TTATTGTTAATT...TAAAG|GGA 2 1 73.143
147771641 GT-AG 0 1.000000099473604e-05 2961 PHUM605250-RA 26649234 7 1790498 1793458 Pediculus humanus 121224 TCG|GTGAGTTTCT...AAGATTTTAATT/TATTTATTTATT...TTCAG|AAA 1 1 93.876

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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]);