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 = 27391012

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Suggested facets: length, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
152560613 GT-AG 0 1.000000099473604e-05 172 rna-XM_039123669.1 27391012 1 2239815 2239986 Phoenix dactylifera 42345 GAG|GTTAGTGGTT...TATTTTTTAAAA/TATTTTTTAAAA...AACAG|GTT 0 1 6.312
152560614 GT-AG 0 0.0426658389629774 146 rna-XM_039123669.1 27391012 2 2242729 2242874 Phoenix dactylifera 42345 CAG|GTACCTTCCA...TTCTCTTTTGCT/AGTTCTCTGATT...ACCAG|GTC 0 1 56.049
152560615 GT-AG 0 0.0071479123369675 146 rna-XM_039123669.1 27391012 3 2243988 2244133 Phoenix dactylifera 42345 CAG|GTACACTTCA...TTCTCTTTTGCT/CTTTTGCTAATG...ACCAG|GTC 0 1 76.238
152560616 GT-AG 0 0.0035525761140252 84 rna-XM_039123669.1 27391012 4 2244642 2244725 Phoenix dactylifera 42345 CAG|GTAGCTATAG...GTTTCTTTATAT/TGTTTCTTTATA...TGCAG|AGG 1 1 85.453
152560617 GT-AG 0 8.587619959060114e-05 3810 rna-XM_039123669.1 27391012 5 2244902 2248711 Phoenix dactylifera 42345 TTG|GTATGGATCA...GCAATCTTACTG/ATGATTCTAATT...TCCAG|CAG 0 1 88.645
152569517 GT-AG 0 5.257132261017764e-05 2139 rna-XM_039123669.1 27391012 6 2248844 2250982 Phoenix dactylifera 42345 TCG|GTATGGATTG...AAGCACATAACT/TAATTAGTGAAA...TGCAG|GGG   0 91.039

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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]);