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 = 25439155

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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
140325172 GT-AG 0 0.0043300578097747 117 rna-XM_015765612.2 25439155 1 32418362 32418478 Oryza sativa 4530 AAG|GTAACCCGGT...ATTGCCTTTTCT/CGGCATCTGACG...CGCAG|CTC 0 1 2.331
140325173 GT-AG 0 0.1730398419448995 578 rna-XM_015765612.2 25439155 2 32418594 32419171 Oryza sativa 4530 GAG|GTACCTAATC...GTTTTCTTATCT/AGTTTTCTTATC...AACAG|TGT 1 1 5.038
140325174 GT-AG 0 0.0001297757401494 1211 rna-XM_015765612.2 25439155 3 32420221 32421431 Oryza sativa 4530 GAG|GTCTGTATCT...TGCATCTTAATA/ATGTGTTTCAAT...GGCAG|TTG 0 1 29.732
140325175 GT-AG 0 8.434680571805705e-05 105 rna-XM_015765612.2 25439155 4 32423114 32423218 Oryza sativa 4530 AGA|GTAAGTTTGT...TTGTTCATATTA/ATTTTGTTCATA...TGCAG|GGA 2 1 69.327
140325176 GT-AG 0 1.000000099473604e-05 1047 rna-XM_015765612.2 25439155 5 32423329 32424375 Oryza sativa 4530 CTG|GTAAGACAAC...AAGGCATTATCT/GCGCTCCTCATT...TGCAG|TGA 1 1 71.916
140325177 GT-AG 0 1.5370064107954185e-05 408 rna-XM_015765612.2 25439155 6 32425173 32425580 Oryza sativa 4530 ATG|GTATGTGCAT...CATGCTCTATTC/GTTGTGTTCATT...TTCAG|AGC 0 1 90.678
140325178 GT-AG 0 2.014043539017031e-05 473 rna-XM_015765612.2 25439155 7 32425694 32426166 Oryza sativa 4530 AAG|GTTTGCCCGA...ACTTTGTTGACA/ACTTTGTTGACA...TATAG|GTT 2 1 93.338

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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]);