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 = 76465

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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
346643 GT-AG 0 1.000000099473604e-05 645 rna-XM_022224991.1 76465 1 1934626 1935270 Acanthaster planci 133434 CAG|GTAGGTACTA...GAAACCTTGACT/TTCGCTTTCATT...TGTAG|GGC 1 1 10.294
346644 GT-AG 0 4.884164432524472e-05 464 rna-XM_022224991.1 76465 2 1934018 1934481 Acanthaster planci 133434 CAG|GTAGACTACT...AGATATTTATCA/ATATTTATCACT...TGCAG|GTC 1 1 14.94
346645 GT-AG 0 1.000000099473604e-05 218 rna-XM_022224991.1 76465 3 1932846 1933063 Acanthaster planci 133434 TCG|GTAAGTCGCT...ATTGACTTAATT/ATTGACTTAATT...TGCAG|GTG 1 1 45.724
346646 GT-AG 0 7.53774539635966e-05 4348 rna-XM_022224991.1 76465 4 1928346 1932693 Acanthaster planci 133434 TCT|GTGTGATCTC...ATGTTCTTGTTC/AACCTTTTTATT...TGCAG|CAT 0 1 50.629
346647 GT-AG 0 0.0241254964604244 579 rna-XM_022224991.1 76465 5 1927736 1928314 Acanthaster planci 133434 AGG|GTAACCCGTA...TTGTTTTTATCA/TTTGTTTTTATC...GGAAG|GGG 1 1 51.63
346648 GT-AG 0 1.000000099473604e-05 611 rna-XM_022224991.1 76465 6 1926873 1927483 Acanthaster planci 133434 CAG|GTATAGGGTC...CGTGTCTGATTT/ACGTGTCTGATT...AACAG|GGC 1 1 59.761
346649 GT-AG 0 1.000000099473604e-05 391 rna-XM_022224991.1 76465 7 1926338 1926728 Acanthaster planci 133434 CTG|GTAAGTGTAT...GGTTTCTTTTTT/TTGAAGTGCATT...TTCAG|GTC 1 1 64.408
346650 GT-AG 0 9.909227772073724e-05 612 rna-XM_022224991.1 76465 8 1924787 1925398 Acanthaster planci 133434 TTG|GTAAGTTCCA...TGTTTCTTGACG/TGTTTCTTGACG...TGCAG|GTG 1 1 94.708

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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]);