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)

9 rows where transcript_id = 14393920

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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
76887213 GT-AG 0 0.0026653446786454 129 rna-XM_010154924.1 14393920 1 707 835 Eurypyga helias 54383 CAG|GTACCCAGGA...CTGGGCTCAGTA/CATGGGCTCACA...CCCAG|ATG 0 1 17.188
76887214 GT-AG 0 1.000000099473604e-05 188 rna-XM_010154924.1 14393920 2 941 1128 Eurypyga helias 54383 AAG|GTGAGTTCCT...GGCTCCCTATGT/AGTGATGTGATG...CCCAG|GAG 0 1 25.391
76887215 GT-AG 0 1.000000099473604e-05 378 rna-XM_010154924.1 14393920 3 1252 1629 Eurypyga helias 54383 AAG|GTGAGATGGT...TGTCCCTTCTCT/TTCTCTGTTACA...TCCAG|GTG 0 1 35.0
76887216 GT-AG 0 1.000000099473604e-05 121 rna-XM_010154924.1 14393920 4 1759 1879 Eurypyga helias 54383 GCG|GTGAGCTGGG...AGCTCCCTCACG/AGCTCCCTCACG...TGCAG|CAA 0 1 45.078
76887217 GT-AG 0 1.000000099473604e-05 82 rna-XM_010154924.1 14393920 5 1941 2022 Eurypyga helias 54383 AGG|GTGAGTGCTT...GCTTCCTTCCCA/CAGCCACAGACA...CCCAG|GCA 1 1 49.844
76887218 GT-AG 0 1.000000099473604e-05 276 rna-XM_010154924.1 14393920 6 2124 2399 Eurypyga helias 54383 CGG|GTAATGTAAA...GACTCCTCATGC/CATGAGCTGACT...GCCAG|GAC 0 1 57.734
76887219 GT-AG 0 1.000000099473604e-05 389 rna-XM_010154924.1 14393920 7 2561 2949 Eurypyga helias 54383 CAG|GTGCTGCTGG...TGTCTCTGCACC/TGTCTCTGCACC...TCCAG|GAT 2 1 70.312
76887220 GT-AG 0 0.0028639387925459 156 rna-XM_010154924.1 14393920 8 3110 3265 Eurypyga helias 54383 CAG|GTACCTGTGC...GGGTTCTTCTCT/CGTTTTCCCACC...TGCAG|GAC 0 1 82.812
76887221 GT-AG 0 1.000000099473604e-05 250 rna-XM_010154924.1 14393920 9 3392 3641 Eurypyga helias 54383 GAG|GTGCGCAGGG...TCTCCTTTGGTA/TGGTAATTCACC...CACAG|ACT 0 1 92.656

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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]);