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)

8 rows where transcript_id = 17265376

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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
92256152 GT-AG 0 1.000000099473604e-05 129 rna-XM_021437036.1 17265376 2 3927855 3927983 Herrania umbratica 108875 TAG|GTACTAAAGA...GGGTTTTTATAT/ATATTATTTATT...GGTAG|GTA 2 1 28.626
92256153 GT-AG 0 1.000000099473604e-05 125 rna-XM_021437036.1 17265376 3 3927506 3927630 Herrania umbratica 108875 GAG|GTGAGTGTAT...TATGCTGTAACC/TTGTCGTTTACT...TGTAG|CAA 1 1 36.379
92256154 GT-AG 0 1.000000099473604e-05 177 rna-XM_021437036.1 17265376 4 3927240 3927416 Herrania umbratica 108875 CGT|GTGAGTAAGT...TTTTCTATAACT/AAACTCTTCACT...TACAG|GAG 0 1 39.46
92256155 GT-AG 0 1.000000099473604e-05 122 rna-XM_021437036.1 17265376 5 3926956 3927077 Herrania umbratica 108875 AAG|GTTTTGTTTT...CATATTTTCATT/CATATTTTCATT...TTAAG|GTC 0 1 45.067
92256156 GT-AG 0 0.0002091858102275 228 rna-XM_021437036.1 17265376 6 3925948 3926175 Herrania umbratica 108875 CAG|GTATAATATT...TTTGCCTTCTTT/AAAGTATTGATT...TTCAG|GAT 0 1 72.066
92256157 GT-AG 0 1.000000099473604e-05 86 rna-XM_021437036.1 17265376 7 3925751 3925836 Herrania umbratica 108875 CGG|GTGGGTGATA...TCATTTTTAATT/TCATTTTTAATT...TGCAG|GTT 0 1 75.909
92256158 GT-AG 0 0.0496600246866001 92 rna-XM_021437036.1 17265376 8 3925398 3925489 Herrania umbratica 108875 CAG|GTAACCTGAA...TAGCCTTTAATG/TTAATGTTTATT...TGCAG|TCT 0 1 84.943
92256159 GT-AG 0 2.564237351621757e-05 81 rna-XM_021437036.1 17265376 9 3925093 3925173 Herrania umbratica 108875 TAG|GTAAGCTGTG...AGAATTTTACTG/ATTTTACTGACT...TACAG|AGC 2 1 92.696

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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]);