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 = 32765314

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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
183237624 GT-AG 0 1.000000099473604e-05 105 rna-XM_004951904.2 32765314 1 8346306 8346410 Setaria italica 4555 GAG|GTAGAAATGC...ACTTCATTAACT/ACTTCATTAACT...TGCAG|TAT 0 1 13.693
183237625 GT-AG 0 0.0032805617686378 85 rna-XM_004951904.2 32765314 2 8346095 8346179 Setaria italica 4555 CCG|GTAACTTGAA...CCTATTTTGATG/CCTATTTTGATG...TTTAG|GAA 0 1 16.98
183237626 GT-AG 0 9.534830713495612e-05 1335 rna-XM_004951904.2 32765314 3 8344562 8345896 Setaria italica 4555 AAG|GTACATCTCT...TCCCACTTGATT/ACTTGATTCATT...TGCAG|CTG 0 1 22.144
183237627 GT-AG 0 0.0829160562515524 181 rna-XM_004951904.2 32765314 4 8344153 8344333 Setaria italica 4555 AAG|GTATTCCTTT...ATGGTTTTGATT/ATGGTTTTGATT...TGCAG|GAA 0 1 28.091
183237628 GT-AG 0 1.000000099473604e-05 769 rna-XM_004951904.2 32765314 5 8342244 8343012 Setaria italica 4555 GAG|GTTTGTAAAT...TCCATCTAATTT/TTCCATCTAATT...AATAG|GAA 0 1 57.825
183237629 GC-AG 0 1.000000099473604e-05 660 rna-XM_004951904.2 32765314 6 8341224 8341883 Setaria italica 4555 CAG|GCAAGTATAC...ATTTTCTTGAAA/TAGTCATTTATT...TGCAG|GTT 0 1 67.214
183237630 GT-AG 0 0.0003257213302016 345 rna-XM_004951904.2 32765314 7 8340392 8340736 Setaria italica 4555 CAG|GTACATTCCA...TTTCTCTTACAG/TTTATGTTCATG...TACAG|GAA 1 1 79.917

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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]);