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 = 23617117

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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
128511033 GT-AG 0 1.000000099473604e-05 694 rna-XM_019392565.1 23617117 1 4902846 4903539 Nicotiana attenuata 49451 CCG|GTGAGTTACA...TATTTTATGACA/TATTTTATGACA...TTTAG|GTT 1 1 17.719
128511034 GT-AG 0 0.0262955991135548 236 rna-XM_019392565.1 23617117 2 4904067 4904302 Nicotiana attenuata 49451 CAG|GTATTTTTGC...TTGTTTTTACTA/GTTGTTTTTACT...CACAG|GCA 0 1 36.211
128511035 GT-AG 0 0.0240580374996793 532 rna-XM_019392565.1 23617117 3 4904876 4905407 Nicotiana attenuata 49451 CTG|GTATGCTGGT...GTTGCCTTCATT/GTTGCCTTCATT...TCTAG|GCA 0 1 56.316
128511036 GT-AG 0 1.000000099473604e-05 77 rna-XM_019392565.1 23617117 4 4905572 4905648 Nicotiana attenuata 49451 TAG|GTTTGTGTTC...GCTAATTTAGTT/TAATTGCTAATT...TGCAG|ACC 2 1 62.07
128511037 GT-AG 0 1.000000099473604e-05 1743 rna-XM_019392565.1 23617117 5 4906218 4907960 Nicotiana attenuata 49451 CAG|GTCCAAGTTC...TAATTCTGAATT/ATAATTCTGAAT...CTCAG|GGG 1 1 82.035
128511038 GT-AG 0 3.730292781730159e-05 654 rna-XM_019392565.1 23617117 6 4908152 4908805 Nicotiana attenuata 49451 CAG|GTAATTTTGG...TTTGCTTTGTCT/CTTTGTCTCAAA...TGCAG|TTA 0 1 88.737

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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]);