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 = 1695692

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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
9636973 GT-AG 0 7.051671446664271e-05 889 rna-XM_033253076.1 1695692 1 164279 165167 Anneissia japonica 1529436 GAA|GTAAAGTTAT...GTATCTTTGAAC/TATATTTTTATG...TGTAG|ATA 0 1 11.211
9636974 GT-AG 0 1.000000099473604e-05 990 rna-XM_033253076.1 1695692 2 165250 166239 Anneissia japonica 1529436 CAG|GTAAGTGCTG...GAATCTTTGATC/TATATATTGAAT...TAAAG|ATA 1 1 23.468
9636975 GT-AG 0 1.000000099473604e-05 695 rna-XM_033253076.1 1695692 3 166360 167054 Anneissia japonica 1529436 AAA|GTGAGTGTTA...TTTCTCTTATTT/CTTTTTTTTATT...TATAG|GAT 1 1 41.405
9636976 GT-AG 0 1.000000099473604e-05 317 rna-XM_033253076.1 1695692 4 167156 167472 Anneissia japonica 1529436 AAG|GTTACAATGA...ATTTTCATATTC/AAAATTTTCATA...TGCAG|GGT 0 1 56.502
9636977 GT-AG 0 1.000000099473604e-05 1007 rna-XM_033253076.1 1695692 5 167509 168515 Anneissia japonica 1529436 GAG|GTTGCAATCA...TTTTTTTCAATT/ATTTTTTTCAAT...TATAG|GCA 0 1 61.883
9636978 GT-AG 0 1.000000099473604e-05 95 rna-XM_033253076.1 1695692 6 168633 168727 Anneissia japonica 1529436 GGC|GTAAGTGATT...GCTCCTATAATT/CTCTGTGTGACC...TTCAG|GCA 0 1 79.372
9636979 GT-AG 0 1.000000099473604e-05 296 rna-XM_033253076.1 1695692 7 168822 169117 Anneissia japonica 1529436 TAG|GTGAGTACAT...ATTGTTTTATTT/GATTGTTTTATT...ATTAG|GTG 1 1 93.423

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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]);