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)

9 rows where transcript_id = 4181836

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
21587778 GT-AG 0 8.397661974591085e-05 92 rna-XM_010671592.2 4181836 1 4459892 4459983 Beta vulgaris 161934 AAA|GTACTTGATC...CTTTTGTTATCA/CCTTTTGTTATC...CACAG|GAA 2 1 2.808
21587779 GT-AG 0 1.000000099473604e-05 111 rna-XM_010671592.2 4181836 2 4460083 4460193 Beta vulgaris 161934 TGG|GTAAGAGGTT...TAGCTTTTACTT/TTAGCTTTTACT...ATCAG|TGA 2 1 6.04
21587780 GT-AG 0 0.000512194718235 1075 rna-XM_010671592.2 4181836 3 4460382 4461456 Beta vulgaris 161934 CAG|GTATATAGTT...TGATCTTTCATC/CTTGGTCTAATA...CTTAG|AGT 1 1 12.178
21587781 GT-AG 0 1.000000099473604e-05 215 rna-XM_010671592.2 4181836 4 4461651 4461865 Beta vulgaris 161934 AAG|GTAAGGTTTT...GTCATTTTCTTT/CATGATGTGATT...TCCAG|GCA 0 1 18.511
21587782 GT-AG 0 2.934824192342248e-05 140 rna-XM_010671592.2 4181836 5 4461975 4462114 Beta vulgaris 161934 AAG|GTAGGTTCTT...TCTCCATTAATT/TCAAGTTTAACA...TCCAG|CTG 1 1 22.07
21587783 GT-AG 0 0.0236897775941869 163 rna-XM_010671592.2 4181836 6 4462414 4462576 Beta vulgaris 161934 GAG|GTATATTTTT...CTCCTCTAAATG/TAAATGCTTATG...TGTAG|ATA 0 1 31.832
21587784 GT-AG 0 8.613812410136403e-05 566 rna-XM_010671592.2 4181836 7 4462916 4463481 Beta vulgaris 161934 GAG|GTAACTAAGC...TGTGCTTTCATG/TGATATCTAACT...ATCAG|GAT 0 1 42.899
21587785 GT-AG 0 1.7330563090495437e-05 84 rna-XM_010671592.2 4181836 8 4463558 4463641 Beta vulgaris 161934 AAG|GTAAGCTCTA...TGACTCGTAAAA/AAAAAATTGATA...TGTAG|ACC 1 1 45.38
21587786 GT-AG 0 1.000000099473604e-05 485 rna-XM_010671592.2 4181836 9 4465154 4465638 Beta vulgaris 161934 CAG|GTAAAGCTTT...TTTTCCTTTGCT/TTAGATTTGAAC...TATAG|GTC 1 1 94.744

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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]);