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)

6 rows where transcript_id = 27699042

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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
153875970 GT-AG 0 1.000000099473604e-05 82 rna-XM_009517077.1 27699042 1 5387779 5387860 Phytophthora sojae 67593 CAT|GTGCGTCGTG...ATTATTTTAACA/TTTATTTTTACA...TGTAG|GCG 0 1 7.828
153875971 GT-AG 0 1.5004620743515936e-05 78 rna-XM_009517077.1 27699042 2 5389439 5389516 Phytophthora sojae 67593 AAG|GTAAGCTCCC...TACCTTCTAACC/TACCTTCTAACC...TGTAG|CAT 0 1 30.959
153875972 GT-AG 0 1.000000099473604e-05 67 rna-XM_009517077.1 27699042 3 5389628 5389694 Phytophthora sojae 67593 CAG|GTAAGGACTC...TTCCTCTGAACT/TCTGAACTCAAC...CGTAG|GGC 0 1 32.586
153875973 GT-AG 0 1.000000099473604e-05 120 rna-XM_009517077.1 27699042 4 5391540 5391659 Phytophthora sojae 67593 ATG|GTTGATCTCG...AAGGCGTCAACG/AAAGGCGTCAAC...GTAAG|CGC 0 1 59.631
153875974 GT-AG 0 1.000000099473604e-05 77 rna-XM_009517077.1 27699042 5 5393121 5393197 Phytophthora sojae 67593 AAG|GTAAGATTGT...ATTCTCTTGGTG/CTGGATCTAACT...AATAG|GTC 0 1 81.047
153875975 GT-AG 0 1.000000099473604e-05 63 rna-XM_009517077.1 27699042 6 5393267 5393329 Phytophthora sojae 67593 ACG|GTAAGCCAAA...CGCGCCTTAGAT/AAGGCTCTAATA...TGTAG|GCT 0 1 82.058

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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]);