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 = 27150977

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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
151208762 GT-AG 0 1.000000099473604e-05 979 rna-XM_020715467.1 27150977 1 296096 297074 Phalaenopsis equestris 78828 CAT|GTGAGCTTAG...ACTCCCTTTGTA/TTTGGCATAACT...TGCAG|AAA 2 1 12.127
151208763 GT-AG 0 1.000000099473604e-05 1671 rna-XM_020715467.1 27150977 2 294317 295987 Phalaenopsis equestris 78828 GCT|GTGAGTATGC...TTGTTCTAAATA/GTTGTTCTAAAT...CATAG|GTA 2 1 18.578
151208764 GT-AG 0 0.0131942584145931 9629 rna-XM_020715467.1 27150977 3 284510 294138 Phalaenopsis equestris 78828 AAG|GTATATTATC...AATTTCTTAAAG/GCTTTTCTCACT...GGCAG|GAA 0 1 29.211
151208765 GT-AG 0 9.153343036330358e-05 390 rna-XM_020715467.1 27150977 4 283763 284152 Phalaenopsis equestris 78828 AAT|GTAATTCTTT...GTTTTGTTATTT/AGTTTTGTTATT...GATAG|GTT 0 1 50.538
151208766 GT-AG 0 0.0003859687694767 514 rna-XM_020715467.1 27150977 5 283148 283661 Phalaenopsis equestris 78828 TAG|GTATTTATAT...TGGCTTTTATAC/CTTCTATTCATT...TGCAG|GCC 2 1 56.571
151208767 GT-AG 0 1.000000099473604e-05 17266 rna-XM_020715467.1 27150977 6 265787 283052 Phalaenopsis equestris 78828 CTG|GTATGAACGA...AATTCTTTTTCT/ATTTTTGTTATT...TCCAG|GTA 1 1 62.246
151208768 GT-AG 0 1.000000099473604e-05 2482 rna-XM_020715467.1 27150977 7 262906 265387 Phalaenopsis equestris 78828 AAG|GTAAGCCAAA...GTTTCTTTCATT/GTTTCTTTCATT...TGCAG|AAG 1 1 86.081

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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]);