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)

6 rows where transcript_id = 2279659

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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
12240199 GT-AG 0 1.000000099473604e-05 10149 rna-XM_027980640.1 2279659 1 3641019 3651167 Aphis gossypii 80765 AGG|GTAAAACTAT...AATGCTTTACTA/AAATGCTTTACT...TATAG|AAA 1 1 2.432
12240200 GT-AG 0 1.000000099473604e-05 91 rna-XM_027980640.1 2279659 2 3640788 3640878 Aphis gossypii 80765 ATA|GTGAGTATAA...AAAAACTTATAT/AAAAAACTTATA...CTTAG|GAG 0 1 12.446
12240201 GT-AG 0 1.000000099473604e-05 466 rna-XM_027980640.1 2279659 3 3640091 3640556 Aphis gossypii 80765 CAA|GTAAGTTAAA...TCTGTATTAAAT/TCTGTATTAAAT...TTTAG|GGT 0 1 28.97
12240202 GT-AG 0 1.000000099473604e-05 58 rna-XM_027980640.1 2279659 4 3639724 3639781 Aphis gossypii 80765 AAG|GTAAATTAAT...ATCACTATAAAT/TATATAGTCAAT...TATAG|CCT 0 1 51.073
12240203 GT-AG 0 1.000000099473604e-05 66 rna-XM_027980640.1 2279659 5 3639508 3639573 Aphis gossypii 80765 TCA|GTAAGATAAT...AAATTTTTAAAA/TATATATTTATT...CCTAG|AAT 0 1 61.803
12240204 GT-AG 0 1.5651056979717124e-05 60 rna-XM_027980640.1 2279659 6 3639073 3639132 Aphis gossypii 80765 AGT|GTAAGATGCA...TTTCTTTTAAAC/TTTCTTTTAAAC...TTTAG|TCT 0 1 88.627

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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]);