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)

6 rows where transcript_id = 7738635

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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
40790505 GT-AG 0 1.000000099473604e-05 100 rna-XM_009890795.1 7738635 1 58419 58518 Charadrius vociferus 50402 TGG|GTGAGGCTCT...TTAGCTTCAATT/CTTCAATTGACT...TGCAG|AAT 1 1 17.374
40790506 GT-AG 0 1.000000099473604e-05 242 rna-XM_009890795.1 7738635 2 58595 58836 Charadrius vociferus 50402 AAG|GTAATAACTA...TTTTTCTTAGCA/CTTTTTCTTAGC...TGTAG|GTT 2 1 25.051
40790507 GT-AG 0 1.000000099473604e-05 503 rna-XM_009890795.1 7738635 3 59012 59514 Charadrius vociferus 50402 AAT|GTAAGGCAGC...AGTGCCTTATTG/AAGTGCCTTATT...TTCAG|ATA 0 1 42.727
40790508 GT-AG 0 1.000000099473604e-05 477 rna-XM_009890795.1 7738635 4 59678 60154 Charadrius vociferus 50402 TGG|GTAAAAGTAT...TCCAGTTTAATG/AGTTTAATGACT...GCTAG|GAC 1 1 59.192
40790509 GT-AG 0 1.4471972127836304e-05 379 rna-XM_009890795.1 7738635 5 60300 60678 Charadrius vociferus 50402 GGC|GTAAGTAGCT...ACACTTTTACTT/CATCATTTTACA...TGCAG|AGC 2 1 73.838
40790510 GT-AG 0 4.340337646868247e-05 641 rna-XM_009890795.1 7738635 6 60776 61416 Charadrius vociferus 50402 CAG|GTACAGTCGC...TGTCTCTTAGTC/CTCTTAGTCACT...TTAAG|GTT 0 1 83.636

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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]);