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)

5 rows where transcript_id = 32094391

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Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
179201111 GT-AG 0 0.0005892427301113 43 rna-XM_012338405.1 32094391 1 761030 761072 Saprolegnia parasitica 101203 CAG|GTAGCCGTCG...TATCTCATGGTG/TGCTATCTCATG...TATAG|CAC 0 1 11.473
179201112 GT-AG 0 1.000000099473604e-05 46 rna-XM_012338405.1 32094391 2 760098 760143 Saprolegnia parasitica 101203 CTC|GTGCGTGCGA...ACGACGATGATG/ACGACGATGATG...TCTAG|ACC 1 1 23.197
179201113 GT-AG 0 1.000000099473604e-05 51 rna-XM_012338405.1 32094391 3 756274 756324 Saprolegnia parasitica 101203 CAG|GTGCGTCAAA...GATATCTGATGT/TGATATCTGATG...TCCAG|GCG 0 1 73.124
179201114 GT-AG 0 0.0016676556200554 43 rna-XM_012338405.1 32094391 4 756150 756192 Saprolegnia parasitica 101203 CAC|GTAGACCTTG...TGAGCTTCAACT/ATGAGCTTCAAC...TGTAG|GAA 0 1 74.196
179201115 GT-AG 0 1.1067904996240168e-05 273 rna-XM_012338405.1 32094391 5 754758 755030 Saprolegnia parasitica 101203 GAA|GTAGATCTAG...TTCTCATTTGTG/CCGAGACCAACC...CGCAG|GAC 0 1 89.004

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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]);