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 = 23617070

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
128510447 GT-AG 0 4.904739767450658e-05 91 rna-XM_019371708.1 23617070 1 16989408 16989498 Nicotiana attenuata 49451 TAG|GTAATTTAGA...GACACTTTAATC/ACTTTAATCATC...GCCAG|AGA 1 1 1.232
128510448 GT-AG 0 1.000000099473604e-05 176 rna-XM_019371708.1 23617070 2 16989675 16989850 Nicotiana attenuata 49451 AAG|GTACTGCTTT...ACAGCCTTTGTG/TCCTGTGTAATT...TGCAG|ATG 0 1 6.277
128510449 GT-AG 0 1.000000099473604e-05 336 rna-XM_019371708.1 23617070 3 16990016 16990351 Nicotiana attenuata 49451 GAG|GTGAGAGGCA...CTCTGTTTAGTT/GTTTAGTTCAGT...TAAAG|GAA 0 1 11.006
128510450 GT-AG 0 1.000000099473604e-05 3667 rna-XM_019371708.1 23617070 4 16990648 16994314 Nicotiana attenuata 49451 CAG|GTAAATAATT...CTGGCTTAAGTA/AAGTAAATCATA...TGCAG|GGG 2 1 19.49
128510451 GT-AG 0 1.000000099473604e-05 90 rna-XM_019371708.1 23617070 5 16994632 16994721 Nicotiana attenuata 49451 AGG|GTAAGTGTAT...ATATTTTTCATG/ATATTTTTCATG...GGCAG|GTC 1 1 28.576
128510452 GT-AG 0 1.000000099473604e-05 99 rna-XM_019371708.1 23617070 6 16994946 16995044 Nicotiana attenuata 49451 CAG|GTGCAGTATA...GTAAACTTAATG/TGTAAACTTAAT...TACAG|GTT 0 1 34.996
128510453 GT-AG 0 1.9854056665919658e-05 85 rna-XM_019371708.1 23617070 7 16996965 16997049 Nicotiana attenuata 49451 GAG|GTAAGCCTCA...CATGACTTGACT/ACTTGACTAATC...TACAG|GTC 0 1 90.026

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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]);