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 = 34177706

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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
191227405 GT-AG 0 1.000000099473604e-05 1555 rna-XM_030492805.2 34177706 1 97834586 97836140 Strigops habroptila 2489341 CAG|GTGAGGCCGA...GGTGCCCTGGCA/CTGGCACTGATG...TACAG|CCC 1 1 1.645
191227406 GT-AG 0 1.000000099473604e-05 450 rna-XM_030492805.2 34177706 2 97830230 97830679 Strigops habroptila 2489341 AGG|GTAAGAGACC...CCTCCCTCACCC/CCCTCCCTCACC...TGCAG|CCC 1 1 82.969
191227407 GT-AG 0 1.000000099473604e-05 85 rna-XM_030492805.2 34177706 3 97829917 97830001 Strigops habroptila 2489341 AAG|GTGAGAGGAG...CACCCCTCTGCT/CTCCATCCCACC...CACAG|GGT 1 1 87.716
191227408 GT-AG 0 1.000000099473604e-05 86 rna-XM_030492805.2 34177706 4 97829742 97829827 Strigops habroptila 2489341 CAG|GTTGGGGGTT...CTGCCCTCACCC/GCTGCCCTCACC...GGCAG|GCG 0 1 89.569
191227409 GT-AG 0 1.000000099473604e-05 316 rna-XM_030492805.2 34177706 5 97829342 97829657 Strigops habroptila 2489341 AAG|GTGGGATGGG...CACCCCTGTGTG/CATGAGGTCACC...CCCAG|GCC 0 1 91.318
191227410 GT-AG 0 1.000000099473604e-05 74 rna-XM_030492805.2 34177706 6 97829121 97829194 Strigops habroptila 2489341 AAG|GTGAGGGGTG...GTGGCCTTTTGG/ACGTGGGTGATG...CACAG|ATC 0 1 94.379
191227411 GT-AG 0 1.000000099473604e-05 93 rna-XM_030492805.2 34177706 7 97828896 97828988 Strigops habroptila 2489341 GAG|GTGGGTGCTG...GTGTCCTGGGGA/GGGGGGGTGACG...TGCAG|GTG 0 1 97.127
191227412 GT-AG 0 1.000000099473604e-05 92 rna-XM_030492805.2 34177706 8 97828681 97828772 Strigops habroptila 2489341 ATG|GTGAGTGGCT...GTCCCCTCACAC/GGTCCCCTCACA...CACAG|GAG 0 1 99.688

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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]);