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)

9 rows where transcript_id = 2121794

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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
11621119 GT-AG 0 1.000000099473604e-05 134 rna-XM_009823427.1 2121794 1 1863510 1863643 Aphanomyces astaci 112090 CTG|GTACGTGTAT...TGGTATTTAAAA/TTGGTATTTAAA...CGTAG|GTT 1 1 17.555
11621120 GT-AG 0 0.0035487316717573 334 rna-XM_009823427.1 2121794 2 1862544 1862877 Aphanomyces astaci 112090 AAG|GTATGCTTAT...TGTGCGTCAATC/ATGTGCGTCAAT...ATTAG|GCC 0 1 33.822
11621121 GT-AG 0 1.000000099473604e-05 89 rna-XM_009823427.1 2121794 3 1862215 1862303 Aphanomyces astaci 112090 CAG|GTAGGTGCAT...CACATGGTAATT/CACATGGTAATT...TGTAG|TCG 0 1 40.0
11621122 GT-AG 0 3.3178900177799604e-05 44 rna-XM_009823427.1 2121794 4 1861952 1861995 Aphanomyces astaci 112090 ACC|GTACGTCGTC...GCTGACTCGACG/AAAGTGCTGACT...TGTAG|GCT 0 1 45.637
11621123 GT-AG 0 1.000000099473604e-05 72 rna-XM_009823427.1 2121794 5 1861265 1861336 Aphanomyces astaci 112090 AAG|GTACGGGGGC...CATATGTTGAAC/CGATCATTCATC...GGCAG|ATC 0 1 61.467
11621124 GT-AG 0 3.038072105390597e-05 50 rna-XM_009823427.1 2121794 6 1860828 1860877 Aphanomyces astaci 112090 AAC|GTACGGTGCC...TTGTCCATATTA/ATGGGACTAACT...TGTAG|GCT 0 1 71.429
11621125 GT-AG 0 1.000000099473604e-05 68 rna-XM_009823427.1 2121794 7 1860460 1860527 Aphanomyces astaci 112090 GCG|GTACGGCACT...GTGTGGTTAATA/GTGTGGTTAATA...GCTAG|ATC 0 1 79.151
11621126 GT-AG 0 1.000000099473604e-05 51 rna-XM_009823427.1 2121794 8 1860247 1860297 Aphanomyces astaci 112090 AAG|GTATGACTGT...AATGTTGTATAT/CCGTGGGTAATG...GCTAG|ATT 0 1 83.32
11621127 GT-AG 0 1.000000099473604e-05 77 rna-XM_009823427.1 2121794 9 1860004 1860080 Aphanomyces astaci 112090 CAG|GTAGAGCATG...GTTTGCTTACGG/CGTTTGCTTACG...CGTAG|GTT 1 1 87.593

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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]);