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 = 15088616

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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
81573423 GT-AG 0 0.0060497517794618 700 rna-XM_009812932.1 15088616 1 30138 30837 Gavia stellata 37040 TGG|GTATGTTCTC...TTTTTCTCAATA/TTTTTTCTCAAT...CATAG|GAA 1 1 20.397
81573424 GT-AG 0 2.8232454928744663e-05 3355 rna-XM_009812932.1 15088616 2 26691 30045 Gavia stellata 37040 CTG|GTACGTAATT...GTTTATTTAATA/CCTATGTTTATT...ATTAG|TTG 0 1 26.694
81573425 GT-AG 0 1.000000099473604e-05 805 rna-XM_009812932.1 15088616 3 25715 26519 Gavia stellata 37040 AAG|GTTAGTTTAT...TTGGCTTGAACA/AACATGTTAATA...AAAAG|GAA 0 1 38.398
81573426 GT-AG 0 1.000000099473604e-05 1391 rna-XM_009812932.1 15088616 4 24129 25519 Gavia stellata 37040 GAG|GTGCTTACAT...TTATATTTGACT/TTATATTTGACT...TTTAG|CAT 0 1 51.745
81573427 GT-AG 0 1.000000099473604e-05 1049 rna-XM_009812932.1 15088616 5 22960 24008 Gavia stellata 37040 TTT|GTAAGTGAAT...ACGTTCTTCATT/ACGTTCTTCATT...TTTAG|CTG 0 1 59.959
81573428 GT-AG 0 0.0117714603426455 2206 rna-XM_009812932.1 15088616 6 20679 22884 Gavia stellata 37040 CAG|GTATTTTTTT...TTGTATTTATAT/TTTGTATTTATA...AACAG|CTT 0 1 65.092
81573429 GT-AG 0 7.053745165232962e-05 545 rna-XM_009812932.1 15088616 7 20041 20585 Gavia stellata 37040 AAG|GTACTTATAG...AGTCTTTTATTT/CTTTTATTTATC...TGTAG|ATG 0 1 71.458
81573430 GT-AG 0 1.7308269571291925e-05 1050 rna-XM_009812932.1 15088616 8 18895 19944 Gavia stellata 37040 GAG|GTAATTATCT...GAGCTTTTATTT/AGAGCTTTTATT...TTCAG|AAA 0 1 78.029

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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]);