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 = 23617055

✎ View and edit SQL

This data as json, CSV (advanced)

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
128510295 GT-AG 0 1.000000099473604e-05 103 rna-XM_019393071.1 23617055 2 65624700 65624802 Nicotiana attenuata 49451 GAG|GTGAAATTCT...AAAGTTTTACAC/CTTATGCTCATA...CGCAG|GAT 0 1 75.956
128510296 GT-AG 0 1.000000099473604e-05 2257 rna-XM_019393071.1 23617055 3 65624890 65627146 Nicotiana attenuata 49451 CAG|GTAAAGGATC...TTATTCATATTA/CATTTATTCATA...TGCAG|ATC 0 1 78.101
128510297 GT-AG 0 1.000000099473604e-05 106 rna-XM_019393071.1 23617055 4 65627300 65627405 Nicotiana attenuata 49451 CTG|GTTGGTTTAC...TGACCCTTACTG/ATAAAATTGATT...TCCAG|ATC 0 1 81.874
128510298 GT-AG 0 1.000000099473604e-05 85 rna-XM_019393071.1 23617055 5 65627570 65627654 Nicotiana attenuata 49451 CAG|GTGAAGTTGC...TAATTCATAACT/CTCTAATTCATA...TGCAG|GTC 2 1 85.919
128510299 GT-AG 0 0.0552401280956872 507 rna-XM_019393071.1 23617055 6 65627803 65628309 Nicotiana attenuata 49451 AAG|GTATCTTCAA...GTTGCCACAATG/AAGAATCTAATG...TGCAG|GTT 0 1 89.568
128510300 GT-AG 0 1.000000099473604e-05 119 rna-XM_019393071.1 23617055 7 65628433 65628551 Nicotiana attenuata 49451 AAG|GTTAGACTAA...TATGTCATAAAG/AAGTATGTCATA...GACAG|GTT 0 1 92.602
128510301 GT-AG 0 1.000000099473604e-05 1021 rna-XM_019393071.1 23617055 8 65628640 65629660 Nicotiana attenuata 49451 TTG|GTAAGGCTCT...TTGGCCTTGTTT/CCTTGTTTGATT...TGTAG|GGG 1 1 94.772
128517171 GT-AG 0 0.0042035758882038 650 rna-XM_019393071.1 23617055 1 65621196 65621845 Nicotiana attenuata 49451 CAA|GTATGTATCT...GCGTTCTTGCCT/GCCTGTTTCATG...TTCAG|GTG   0 5.82

Advanced export

JSON shape: default, array, newline-delimited, object

CSV options: 

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]);