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 = 25075725

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Suggested facets: dinucleotide_pair, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
137882334 GT-AG 0 2.4319972477426625e-05 411 rna-XM_020746131.1 25075725 1 908626 909036 Orbicella faveolata 48498 GAC|GTGACGATAA...TTTGTCGTAATT/GTAATTTTGAAT...TAAAG|CTA 2 1 0.433
137882335 GT-AG 0 0.0003354143343786 327 rna-XM_020746131.1 25075725 2 909183 909509 Orbicella faveolata 48498 TTG|GTATGGTACC...GCCTTCTTGTTT/GTCAAGTTAACA...GCCAG|ACA 1 1 13.074
137882336 GT-AG 0 1.0537778272425577e-05 529 rna-XM_020746131.1 25075725 3 909748 910276 Orbicella faveolata 48498 TGG|GTGAGCTGGC...AATGCCTTAACA/TTGCTGTTTATT...CACAG|GCA 2 1 33.68
137882337 GT-AG 0 1.000000099473604e-05 491 rna-XM_020746131.1 25075725 4 910455 910945 Orbicella faveolata 48498 CAG|GTAGAGAAAT...ATTCCTGTCATT/TATCTATTCATG...CACAG|AAA 0 1 49.091
137882338 GT-AG 0 0.000118824009302 453 rna-XM_020746131.1 25075725 5 911023 911475 Orbicella faveolata 48498 TGG|GTACTGTTAT...CATTCGTTACTT/CTCGCACTCATT...GTTAG|TTG 2 1 55.758
137882339 TG-CC 0 0.0073534267185324 392 rna-XM_020746131.1 25075725 6 911570 911961 Orbicella faveolata 48498 CAG|TGAGTCATTC...TCCCTTTTGAAA/ACGTATTTTAAC...GTACC|AGG 0 1 63.896
137882340 GT-AG 0 0.002394641609447 497 rna-XM_020746131.1 25075725 7 912123 912619 Orbicella faveolata 48498 GGA|GTAAGTTTTG...TATTTTTTGAAG/TATTTTTTGAAG...ACAAG|GTT 2 1 77.835

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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]);