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 = 10143838

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
55681294 GT-AG 0 1.000000099473604e-05 384 rna-XM_023685279.1 10143838 2 15869328 15869711 Cucurbita pepo 3663 CGG|GTAATGTATG...ACATGCTTAACC/ACATGCTTAACC...AAGAG|TTT 0 1 38.479
55681295 TG-TG 0 0.0028857651742236 377 rna-XM_023685279.1 10143838 3 15868707 15869083 Cucurbita pepo 3663 AGA|TGATATGCTT...GTAGCTTTTGCA/AAAAAGTTAACT...TCTTG|GGT 1 1 44.544
55681296 GT-TA 0 0.0002740258528654 135 rna-XM_023685279.1 10143838 4 15867934 15868068 Cucurbita pepo 3663 TAT|GTCCTCCTCA...CTTTTGTTGAAT/AAAGGACTCATT...TGTTA|GAT 0 1 60.403
55681297 GT-AG 0 0.0002254165329653 749 rna-XM_023685279.1 10143838 5 15866890 15867638 Cucurbita pepo 3663 TAG|GTTTACCTAG...CAGTTCCTAATG/CTTGGATTGATA...TTTAG|GTT 1 1 67.736
55681298 GT-AG 0 1.000000099473604e-05 132 rna-XM_023685279.1 10143838 6 15866276 15866407 Cucurbita pepo 3663 TTT|GTGAATTTTG...GCCACCCGAATT/AAGATTGTCATC...TCAAG|CCA 0 1 79.717
55681299 GT-AG 0 4.840600606468335e-05 328 rna-XM_023685279.1 10143838 7 15865156 15865483 Cucurbita pepo 3663 TTT|GTGAATTTTG...CAACTTTTAATG/ATGTTGCTGATT...TGTAG|GTG 0 1 99.403

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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]);