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 = 35515756

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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
199620866 GT-AG 0 1.000000099473604e-05 1027 rna-XM_010219336.1 35515756 1 336121 337147 Tinamus guttatus 94827 GAG|GTGAGTAGGA...TTGTATTTAATT/TTGTATTTAATT...TGCAG|TGC 0 1 41.463
199620867 GT-AG 0 0.0001113433163829 5338 rna-XM_010219336.1 35515756 2 337350 342687 Tinamus guttatus 94827 CAG|GTAACTGTGT...CAAGCTTTGCCA/ATTGTTCTGATA...CACAG|CCT 1 1 49.284
199620868 GT-AG 0 1.000000099473604e-05 941 rna-XM_010219336.1 35515756 3 342858 343798 Tinamus guttatus 94827 CAC|GTGAGTATTC...TCCTCCTGAAAG/CGCTGTGTTACT...AATAG|TCC 0 1 55.865
199620869 GT-AG 0 1.000000099473604e-05 818 rna-XM_010219336.1 35515756 4 344018 344835 Tinamus guttatus 94827 AAG|GTACGTGGTG...GAGATGTTAACT/GAGATGTTAACT...TGCAG|AGT 0 1 64.344
199620870 GT-AG 0 1.9693202005996724e-05 1819 rna-XM_010219336.1 35515756 5 344957 346775 Tinamus guttatus 94827 CAG|GTAAACGTTT...TGTCTCTCAACT/CTGTCTCTCAAC...TGCAG|GAG 1 1 69.028
199620871 GT-AG 0 1.000000099473604e-05 1111 rna-XM_010219336.1 35515756 6 347145 348255 Tinamus guttatus 94827 TAG|GTAAGAAAGG...TGAATCTTATTT/AATTTGCTGACT...TCTAG|GAG 1 1 83.314
199620872 GT-AG 0 1.000000099473604e-05 1481 rna-XM_010219336.1 35515756 7 348337 349817 Tinamus guttatus 94827 TAG|GTAATAAGCT...GGGCCGTTGATG/TTGATGCCAACT...TTTAG|GTG 1 1 86.45
199620873 GT-AG 0 1.000000099473604e-05 2016 rna-XM_010219336.1 35515756 8 350009 352024 Tinamus guttatus 94827 ATG|GTAAGATTAT...TTGTCTGTATAT/CTGTATATAAAT...TTTAG|CTG 0 1 93.844

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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]);