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 = 20685493

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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
110725504 GT-AG 0 1.000000099473604e-05 360 rna-XM_029962088.1 20685493 1 15408 15767 Manacus vitellinus 328815 CAG|GTACTGGCCC...TCTGCCTTCTCT/GCCCTGCTGACA...TCCAG|CAC 2 1 5.628
110725505 GT-AG 0 1.000000099473604e-05 207 rna-XM_029962088.1 20685493 2 16123 16329 Manacus vitellinus 328815 ATG|GTGAGCAGGG...ATTCTCTTCTCT/ACCCTCTTCACC...TACAG|GCC 0 1 36.364
110725506 GT-AG 0 1.000000099473604e-05 265 rna-XM_029962088.1 20685493 3 16507 16771 Manacus vitellinus 328815 TCG|GTAAGGCTGA...GCTCCCTTTTCC/GCTGTTTGCAAA...GCCAG|GAG 0 1 51.688
110725507 GT-AG 0 1.000000099473604e-05 439 rna-XM_029962088.1 20685493 4 16928 17366 Manacus vitellinus 328815 AAG|GTACAGGTTT...GTCTCCTTGCCC/CCTGAGCTCATG...TGCAG|GCC 0 1 65.195
110725508 GT-AG 0 1.000000099473604e-05 272 rna-XM_029962088.1 20685493 5 17469 17740 Manacus vitellinus 328815 TTG|GTAAGGACAA...CATGCCTTGTTC/GCCCCAGTGACA...TGCAG|CTT 0 1 74.026
110725509 GT-AG 0 1.000000099473604e-05 297 rna-XM_029962088.1 20685493 6 17844 18140 Manacus vitellinus 328815 TCG|GTGAGTGCCA...CAGGGGCTAATG/CAGGGGCTAATG...CCCAG|GAC 1 1 82.944
110725510 GT-AG 0 1.000000099473604e-05 86 rna-XM_029962088.1 20685493 7 18201 18286 Manacus vitellinus 328815 GCG|GTGAGTGGGG...GGGGTTTTATCT/GGGGGTTTTATC...CACAG|CAC 1 1 88.139

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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]);