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 = 32241379

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
180024648 GT-AG 0 1.000000099473604e-05 36 rna-XM_012946432.2 32241379 1 390207 390242 Schistosoma haematobium 6185 TAT|GTAAGTAATC...AGATTCTAAAAC/CAGATTCTAAAA...CATAG|TCT 0 1 16.667
180024649 GT-AG 0 0.0206358520602408 312 rna-XM_012946432.2 32241379 2 390337 390648 Schistosoma haematobium 6185 TAG|GTTTACTTCA...CTTCTCTTGTCC/AATAATGTGACA...CAAAG|ACA 1 1 25.228
180024650 GT-AG 0 1.000000099473604e-05 2000 rna-XM_012946432.2 32241379 3 390844 392843 Schistosoma haematobium 6185 AAG|GTGAGTTCCT...TTACTTTTAATC/TTACTTTTAATC...TGTAG|TGG 1 1 42.987
180024651 GT-AG 0 2.4324930558230776e-05 704 rna-XM_012946432.2 32241379 4 392909 393612 Schistosoma haematobium 6185 AAC|GTAAGTTGAA...GATGATTTAACT/GATGATTTAACT...TCCAG|ATT 0 1 48.907
180024652 GT-AG 0 1.000000099473604e-05 1431 rna-XM_012946432.2 32241379 5 393680 395110 Schistosoma haematobium 6185 GGC|GTAAGAAACA...TTGTCTTTTTCT/AAAATCCTAATT...ATCAG|CTG 1 1 55.009
180024653 GT-AG 0 0.057701858125957 1482 rna-XM_012946432.2 32241379 6 395186 396667 Schistosoma haematobium 6185 GGA|GTATGTTAAA...ATTACCTTATTC/AATTACCTTATT...TACAG|CAT 1 1 61.84
180024654 GT-AG 0 0.0021999581256272 660 rna-XM_012946432.2 32241379 7 396817 397476 Schistosoma haematobium 6185 GAG|GTAACTACTT...ACTGTTTTAATT/ACTGTTTTAATT...TTCAG|AAG 0 1 75.41
180024655 GT-AG 0 0.0001558000875819 778 rna-XM_012946432.2 32241379 8 397606 398383 Schistosoma haematobium 6185 TCG|GTAAATATTT...ACTGTTTTAATT/ACTGTTTTAATT...TTCAG|AAG 0 1 87.158

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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]);