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 = 38189493

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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
210821172 GT-AG 0 1.000000099473604e-05 1974 rna-XM_025993786.1 38189493 1 48020564 48022537 Vulpes vulpes 9627 CAG|GTAAGACTAC...TGGGCTTTGATC/TCTATTTTAAAA...TTCAG|AGT 1 1 14.684
210821173 GT-AG 0 1.000000099473604e-05 1661 rna-XM_025993786.1 38189493 2 48017211 48018871 Vulpes vulpes 9627 CTG|GTAAGTTCAA...CTCTTCTCATTT/GCTCTTCTCATT...TACAG|GGA 1 1 68.348
210821174 GT-AG 0 1.000000099473604e-05 1116 rna-XM_025993786.1 38189493 3 48015961 48017076 Vulpes vulpes 9627 GAG|GTAAGTTTTT...TGTATTGTATCA/TATTGTATCAGC...TGCAG|ATA 0 1 72.598
210821175 GT-AG 0 0.0005558779566699 3167 rna-XM_025993786.1 38189493 4 48012675 48015841 Vulpes vulpes 9627 TCA|GTAAGTATTA...CTTCCTTTGAAA/CTTCCTTTGAAA...TTCAG|CTG 2 1 76.372
210821176 GT-AG 0 1.000000099473604e-05 1541 rna-XM_025993786.1 38189493 5 48010993 48012533 Vulpes vulpes 9627 AAC|GTAAGAAAGG...GCTTTCTTGGTG/GCTCGTTTAATA...TACAG|ATA 2 1 80.844
210821177 GT-AG 0 1.000000099473604e-05 798 rna-XM_025993786.1 38189493 6 48010049 48010846 Vulpes vulpes 9627 TAG|GTGGGTAGTA...CTATTTTTAACC/ATTTTTTTCATA...TGTAG|CCA 1 1 85.474
210821178 GT-AG 0 4.769777990579106e-05 3626 rna-XM_025993786.1 38189493 7 48006268 48009893 Vulpes vulpes 9627 AAG|GTAAGCATTC...CTGTTTTTATTT/CCTGTTTTTATT...AACAG|GCT 0 1 90.39
210821179 GT-AG 0 0.0018032461576405 1433 rna-XM_025993786.1 38189493 8 48004693 48006125 Vulpes vulpes 9627 ATG|GTATAATTAT...TTTTTTTTGTCT/AATAATTCGATT...TTCAG|GAA 1 1 94.894

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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]);