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)

7 rows where transcript_id = 23617062

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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
128510372 GT-AG 0 1.000000099473604e-05 445 rna-XM_019397184.1 23617062 2 102570395 102570839 Nicotiana attenuata 49451 CTG|GTAAGCAAAT...TTTCTTTTAGTT/TTTAGTTTCACT...TTCAG|GTG 0 1 17.98
128510373 GT-AG 0 1.000000099473604e-05 849 rna-XM_019397184.1 23617062 3 102571053 102571901 Nicotiana attenuata 49451 AAG|GTAAGATCTA...TACTTCTTGAAA/CAGTTGCTTACA...TTCAG|ACC 0 1 23.596
128510374 GT-AG 0 0.0002783126082119 4423 rna-XM_019397184.1 23617062 4 102572786 102577208 Nicotiana attenuata 49451 CCC|GTAAGTGTTT...TTCATTTTAACT/TTCATTTTAACT...TTCAG|GCA 2 1 46.902
128510375 GT-AG 0 1.000000099473604e-05 1417 rna-XM_019397184.1 23617062 5 102577501 102578917 Nicotiana attenuata 49451 CAG|GTTGGCTCAT...GATTTGTTAATT/GATTTGTTAATT...TCTAG|GTT 0 1 54.601
128510376 GT-AG 0 1.000000099473604e-05 2580 rna-XM_019397184.1 23617062 6 102579869 102582448 Nicotiana attenuata 49451 CAA|GTAAGATGCA...CTTTCATTGATT/CTTTCATTGATT...TGCAG|GTT 0 1 79.673
128510377 GT-AG 0 0.000473488553531 127 rna-XM_019397184.1 23617062 7 102582721 102582847 Nicotiana attenuata 49451 TGG|GTATGATATC...TTGTCATTGACT/TTGTCATTGACT...TGCAG|GCG 2 1 86.844
128517172 GT-AG 0 1.4652428741198592e-05 1262 rna-XM_019397184.1 23617062 1 102568574 102569835 Nicotiana attenuata 49451 TTT|GTAAGTCTTT...ATTAAATTAATA/ATTAAATTAATA...TGCAG|GCG   0 3.586

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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]);