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 = 22246077

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Suggested facets: dinucleotide_pair, score

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
120576780 AT-AC 0 0.0002987204830199 381 gene-LOC114895844 22246077 1 242336 242716 Monodon monoceros 40151 TGG|ATAAAACGGC...GGGCCTGAAATT/CTGAAATTTACT...CTTAC|TTA   0 8.625
120576781 GT-AG 0 1.000000099473604e-05 3136 gene-LOC114895844 22246077 2 242919 246054 Monodon monoceros 40151 AAG|GTGCGTCCAA...AGGTCTTTTATG/AGGTCTTTTATG...TTTAG|GTT   0 32.168
120576782 GT-AG 0 0.0759578662334197 373 gene-LOC114895844 22246077 3 246187 246559 Monodon monoceros 40151 TCT|GTAGATTTTC...TAGCCTTTAATT/CTTTAATTCAAA...TTCAG|GAT   0 47.552
120576783 TG-GT 0 0.0005691644732811 949 gene-LOC114895844 22246077 4 246726 247674 Monodon monoceros 40151 GTC|TGTTTTCCAG...GGCATTTTAAAT/CAGTTATTCATA...GGGGT|CAT   0 66.9
120576784 GT-AG 0 1.000000099473604e-05 1652 gene-LOC114895844 22246077 5 247771 249422 Monodon monoceros 40151 TAG|GTAAGACCTT...TCCTTGTTAATT/TCCTTGTTAATT...TACAG|AAA   0 78.089
120576785 GT-AG 0 1.000000099473604e-05 1430 gene-LOC114895844 22246077 6 249509 250938 Monodon monoceros 40151 CAA|GTATGTGGAG...TGGTGCTCATTT/CTGGTGCTCATT...TGCAG|GTC   0 88.112

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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]);