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 = 26649223

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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
147771560 GT-AG 0 1.000000099473604e-05 976 PHUM605220-RA 26649223 1 1680054 1681029 Pediculus humanus 121224 CAG|GTAAGTGTGT...CTTTTTTCAAAT/ACTTTTTTCAAA...TTCAG|GTT 0 1 3.239
147771561 GT-AG 0 0.0001106787492938 101 PHUM605220-RA 26649223 2 1679830 1679930 Pediculus humanus 121224 CAG|GTTTGTTTGC...CAACCTTTACTC/CCTTTACTCAAT...TTCAG|TTT 0 1 8.772
147771562 GT-AG 0 1.000000099473604e-05 187 PHUM605220-RA 26649223 3 1679539 1679725 Pediculus humanus 121224 AAG|GTCGGTCGGT...ATTTTGATGATG/ATTTTGATGATG...TCCAG|TCC 2 1 13.45
147771563 GT-AG 0 1.7153747125270773 103 PHUM605220-RA 26649223 4 1679291 1679393 Pediculus humanus 121224 AAA|GTATTTTTTT...TTTTTCTTACTA/CTTTTTCTTACT...TTTAG|AGT 0 1 19.973
147771564 GT-AG 0 1.000000099473604e-05 95 PHUM605220-RA 26649223 5 1679038 1679132 Pediculus humanus 121224 TAG|GTGAGTCTCG...TTTTTCATAATA/ATAATTTTCATT...TTAAG|ATT 2 1 27.081
147771565 GT-AG 0 4.676034202561176e-05 183 PHUM605220-RA 26649223 6 1678736 1678918 Pediculus humanus 121224 CGG|GTAACAACAA...ATTTTTTTATTT/GATTTTTTTATT...CACAG|GAT 1 1 32.434
147771566 GT-AG 0 1.1758955182297e-05 143 PHUM605220-RA 26649223 7 1678390 1678532 Pediculus humanus 121224 GAA|GTAAATAATA...TTTTTCTTTTTT/TTTTTGTTCACG...TTTAG|GTA 0 1 41.565
147771567 GT-AG 0 1.000000099473604e-05 93 PHUM605220-RA 26649223 8 1678124 1678216 Pediculus humanus 121224 TAC|GTGAGTGTGT...ATCTTTTTACAA/GATCTTTTTACA...TCCAG|GCA 2 1 49.348

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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]);