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 = 15088621

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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
81573466 GT-AG 0 1.000000099473604e-05 4785 rna-XM_009813489.1 15088621 1 40604 45388 Gavia stellata 37040 GAG|GTGATTGGGT...TGTTTCTTATAC/CTGTTTCTTATA...TACAG|GAA 0 1 5.97
81573467 GT-AG 0 1.000000099473604e-05 9289 rna-XM_009813489.1 15088621 2 31213 40501 Gavia stellata 37040 AGG|GTAAGAATTT...TCTTTTTTAAAA/TCAATTTTTATT...CCAAG|GAC 0 1 14.428
81573468 GT-AG 0 2.089973634636978e-05 2741 rna-XM_009813489.1 15088621 3 28357 31097 Gavia stellata 37040 AAG|GTAACTGCTT...TGGATTTTCATG/TGGATTTTCATG...TTCAG|GTT 1 1 23.964
81573469 GT-AG 0 0.081209850087571 1443 rna-XM_009813489.1 15088621 4 26818 28260 Gavia stellata 37040 CAG|GTATCATAGC...AAGGCCTTGAAG/AAGGCCTTGAAG...CATAG|GGG 1 1 31.924
81573470 GT-AG 0 0.0025661065260802 4811 rna-XM_009813489.1 15088621 5 21897 26707 Gavia stellata 37040 AAG|GTATGCAGAC...GTTGTCTTGAAT/ATATACTTGATT...CCCAG|TGT 0 1 41.045
81573471 GT-AG 0 1.000000099473604e-05 3451 rna-XM_009813489.1 15088621 6 18224 21674 Gavia stellata 37040 CAT|GTAAGGCTTT...TGATTTTTAAAT/TGATTTTTAAAT...TATAG|GAG 0 1 59.453
81573472 GT-AG 0 0.0085753005318668 3017 rna-XM_009813489.1 15088621 7 15049 18065 Gavia stellata 37040 CAG|GTAGCTATTC...TTGCCTTTAGAT/TCTGTTTTGAGA...CTCAG|GAT 2 1 72.554
81573473 GT-AG 0 0.0001159681009481 8118 rna-XM_009813489.1 15088621 8 6756 14873 Gavia stellata 37040 AAG|GTAAGCTACA...CCCCTCTTAACC/GTGATGTTAACA...TGCAG|GTT 0 1 87.065

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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]);