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 = 29320785

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Suggested facets: dinucleotide_pair, score, 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
163356438 GT-AG 0 4.155919812387282e-05 267 rna-XM_021964247.1 29320785 2 32454 32720 Prunus avium 42229 GAG|GTACGCAATC...AATGTCTTGGTC/TGTGCTCTAATG...TTCAG|GAT 2 1 29.66
163356439 GT-AG 0 0.0119226098231168 134 rna-XM_021964247.1 29320785 3 32819 32952 Prunus avium 42229 AAG|GTTTCCCTAA...GAGTTTGTACTA/TTTGTACTAATG...ATCAG|TTG 1 1 42.993
163356440 GT-AG 0 0.0006772975669006 205 rna-XM_021964247.1 29320785 4 33022 33226 Prunus avium 42229 GTG|GTATAATATG...TATTGTTTATTA/TTATTGTTCATG...TTCAG|TCC 1 1 52.381
163356441 GT-AG 0 1.000000099473604e-05 89 rna-XM_021964247.1 29320785 5 33326 33414 Prunus avium 42229 GTG|GTAATATACA...CTGTTGTTAAAT/CTGTTGTTAAAT...TTCAG|GTT 1 1 65.85
163356442 GT-AA 0 2.4121566878178237e-05 107 rna-XM_021964247.1 29320785 6 33545 33651 Prunus avium 42229 AGT|GTAAGTTGGC...AAATTTTTGCTG/CAAGTGTTAAGG...CGCAA|GTG 2 1 83.537
163356443 GT-AG 0 1.000000099473604e-05 475 rna-XM_021964247.1 29320785 7 33771 34245 Prunus avium 42229 GTT|GTGAGTTTAC...ATAGTATTAACA/ATAGTATTAACA...TGCAG|AG 1 1 99.728
163356448 GT-AG 0 0.005765723184391 183 rna-XM_021964247.1 29320785 1 32191 32373 Prunus avium 42229 CAT|GTTCTCTCTC...TTGGTTTTGATG/TCTGATTTGATT...TCCAG|ATC   0 28.98

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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]);