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 = 21796708

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
118000710 GT-AG 0 1.1142094023208032e-05 27014 rna-XM_005343740.1 21796708 2 60699443 60726456 Microtus ochrogaster 79684 AAG|GTAAGTTTAG...ATAGTTTTAATG/ATAGTTTTAATG...TGTAG|CAG 0 1 82.704
118000711 GT-AG 0 1.000000099473604e-05 10755 rna-XM_005343740.1 21796708 3 60688540 60699294 Microtus ochrogaster 79684 CAG|GTAGGATAAA...ATTTTTTTAATT/ATTTTTTTAATT...CTTAG|GAT 1 1 85.936
118000712 GT-AG 0 1.0963819566348325e-05 2349 rna-XM_005343740.1 21796708 4 60686113 60688461 Microtus ochrogaster 79684 AAG|GTACTATAAT...TAAATTTTGATT/TAAATTTTGATT...TATAG|ATC 1 1 87.639
118000713 GT-AG 0 4.3619688392113546e-05 2160 rna-XM_005343740.1 21796708 5 60683821 60685980 Microtus ochrogaster 79684 CAA|GTAAGCATAA...TTCATTTTATAC/AGTTTATTCATT...TACAG|AAA 1 1 90.522
118000714 GT-AG 0 1.000000099473604e-05 4369 rna-XM_005343740.1 21796708 6 60679346 60683714 Microtus ochrogaster 79684 CAG|GTACTTACAA...GATTTCTTTTTT/TGAGTTCTGATT...TTCAG|GGT 2 1 92.837
118006226 GT-AG 0 1.000000099473604e-05 12492 rna-XM_005343740.1 21796708 1 60730343 60742834 Microtus ochrogaster 79684 GAG|GTAAAGTTCG...TTTACTTTATAC/TTTATACTCACA...TCTAG|GAA   0 1.463

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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]);