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)

8 rows where transcript_id = 37957328

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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
209597302 GT-AG 0 0.0038099996486805 154 rna-XM_022783322.1 37957328 1 35684841 35684994 Vigna radiata 157791 GCG|GTAAGCTTCT...ATTTTTTTAATG/AATGTTTTGATT...TGCAG|CAA 0 1 5.407
209597303 GT-AG 0 0.0478359093674325 77 rna-XM_022783322.1 37957328 2 35684704 35684780 Vigna radiata 157791 AAT|GTATATTTAA...TTTTGTTTATTT/TTTTTGTTTATT...GGCAG|GAG 0 1 6.65
209597304 GT-AG 0 1.000000099473604e-05 127 rna-XM_022783322.1 37957328 3 35684490 35684616 Vigna radiata 157791 CTG|GTGAGGTGTT...CAACTTTTACTT/TTCTATTTCACA...TAAAG|GAA 0 1 8.452
209597305 GT-AG 0 1.000000099473604e-05 495 rna-XM_022783322.1 37957328 4 35683923 35684417 Vigna radiata 157791 CCG|GTAAAATGAT...AATTTCTTCTGT/CCAAGCGTCATA...TGAAG|GAA 0 1 9.944
209597306 GT-AG 0 2.6554578559797805e-05 329 rna-XM_022783322.1 37957328 5 35681663 35681991 Vigna radiata 157791 GAG|GTAAGCCTAT...ACTTTTTTATTT/AACTTTTTTATT...TGAAG|GCA 2 1 49.948
209597307 GT-AG 0 1.000000099473604e-05 1105 rna-XM_022783322.1 37957328 6 35680350 35681454 Vigna radiata 157791 TTG|GTAAGTCTGA...GAATTCGCAACT/CATGTAATCATA...GCTAG|GAA 0 1 54.257
209597308 GT-AG 0 1.1689974478293324e-05 513 rna-XM_022783322.1 37957328 7 35679336 35679848 Vigna radiata 157791 CTG|GTAATTTCAA...TTGAGCTTGATC/ATTGAGCTTATT...CCCAG|GTC 0 1 64.636
209597309 GT-AG 0 0.0001377598045361 520 rna-XM_022783322.1 37957328 8 35677196 35677715 Vigna radiata 157791 AAG|GTACGTTTAT...CTATATTTGATT/CTATATTTGATT...GGCAG|ACG 0 1 98.198

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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]);