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 = 34243605

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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
191722401 GT-AG 0 1.000000099473604e-05 386 rna-XM_009668827.1 34243605 1 60894 61279 Struthio camelus 8801 CAA|GTGAGTATCG...TTGCTCTTCGTT/TCGTTCCTGAGA...TGCAG|GAT 2 1 5.122
191722402 GT-AG 0 1.000000099473604e-05 91 rna-XM_009668827.1 34243605 2 61437 61527 Struthio camelus 8801 GAT|GTGAGTATGG...AAGTCCTTACCT/TAAGTCCTTACC...GACAG|ACG 0 1 18.75
191722403 GT-AG 0 7.317728532305104e-05 177 rna-XM_009668827.1 34243605 3 61646 61822 Struthio camelus 8801 GCA|GTACGTGTCC...CTCTCCTCTGTC/CAGATAATGACT...CATAG|CCA 1 1 28.993
191722404 GT-AG 0 1.000000099473604e-05 103 rna-XM_009668827.1 34243605 4 61942 62044 Struthio camelus 8801 GAC|GTAAGACAGA...CTCTCCTTCTCC/GGCAAACTGAGG...ACCAG|GTT 0 1 39.323
191722405 GT-AG 0 2.6901170844535827e-05 238 rna-XM_009668827.1 34243605 5 62245 62482 Struthio camelus 8801 CAA|GTAAGTTAGG...TTCTTCTTCCCT/AGGCACCTGATT...CACAG|CGA 2 1 56.684
191722406 GT-AG 0 0.0004501610994797 199 rna-XM_009668827.1 34243605 6 62600 62798 Struthio camelus 8801 TAG|GTAACCCCAT...AGAACCTCACTC/CGGTTGCTCACA...TCCAG|CGT 2 1 66.84
191722407 GT-AG 0 1.000000099473604e-05 354 rna-XM_009668827.1 34243605 7 62938 63291 Struthio camelus 8801 GAG|GTGAGACCCC...CTCGTCTTTCCC/CAGCCACTGATC...CACAG|ATC 0 1 78.906
191722408 GT-AG 0 1.000000099473604e-05 286 rna-XM_009668827.1 34243605 8 63385 63670 Struthio camelus 8801 CAG|GTGAGCATCC...ACACCAATAACC/GGGCGATTAAAA...TGCAG|AGC 0 1 86.979

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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]);