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 = 2158696

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Suggested facets: dinucleotide_pair, score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
11719370 GT-AG 0 1.000000099473604e-05 56 rna-XM_008863040.1 2158696 1 1103653 1103708 Aphanomyces invadans 157072 CTG|GTGCGTGCCT...TCTCTCTCACTA/CCAAGCCTCATG...TGCAG|GTC 2 1 10.85
11719371 GT-AG 0 1.000000099473604e-05 74 rna-XM_008863040.1 2158696 2 1103962 1104035 Aphanomyces invadans 157072 GTG|GTACGACCCC...ACTCCTTTCATG/TTGTGGCTGACC...CGCAG|CAT 0 1 14.457
11719372 GT-AG 0 0.000212167979803 46 rna-XM_008863040.1 2158696 3 1104388 1104433 Aphanomyces invadans 157072 CAG|GTACCGTCGG...TCGTGTTTGTCA/GTGTTTGTCAAG...TTTAG|TGA 1 1 19.475
11719373 GT-AG 0 0.0013990905498268 53 rna-XM_008863040.1 2158696 4 1105005 1105057 Aphanomyces invadans 157072 GCG|GTATACACTC...AACGCATTGTAT/ACGCAACGCATT...CGTAG|GTT 2 1 27.616
11719374 GT-AG 0 3.085292943790388e-05 46 rna-XM_008863040.1 2158696 5 1106390 1106435 Aphanomyces invadans 157072 AGG|GTATAAAGAA...TGTTACTTGATT/TGTTACTTGATT...TGTAG|GTA 2 1 46.607
11719375 GT-AG 0 1.000000099473604e-05 39 rna-XM_008863040.1 2158696 6 1107978 1108016 Aphanomyces invadans 157072 CAG|GTACGACGAA...TTCACCTGACTG/GTTCACCTGACT...CGTAG|GTC 2 1 68.591
11719376 GC-AG 0 1.000000099473604e-05 42 rna-XM_008863040.1 2158696 7 1108697 1108738 Aphanomyces invadans 157072 CAG|GCGCGTCTGC...TTCGTCACAACT/TCGTTCGTCACA...AGTAG|GGG 1 1 78.286
11719377 GT-AG 0 1.000000099473604e-05 94 rna-XM_008863040.1 2158696 8 1109131 1109224 Aphanomyces invadans 157072 ATG|GTAAGTCCGC...TTGCCATTGACG/TTGCCATTGACG...CGTAG|TTA 0 1 83.875

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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]);