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 = 3643524

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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
18157738 GT-AG 0 0.013882507400474 60 rna-gnl|WGS:STFN|BDV28DRAFT_mRNA126016 3643524 1 163055 163114 Aspergillus coremiiformis 138285 CCC|GTATGTAGTC...CATCCCTGAATG/TCGAAACTGACC...CATAG|TCA 2 1 4.691
18157739 GT-AG 0 1.000000099473604e-05 58 rna-gnl|WGS:STFN|BDV28DRAFT_mRNA126016 3643524 2 163203 163260 Aspergillus coremiiformis 138285 CTG|GTGAGTCTCT...TATCTTCTAACG/GCAATACTAACT...TACAG|GAT 0 1 13.473
18157740 GT-AG 0 0.0002057926530027 60 rna-gnl|WGS:STFN|BDV28DRAFT_mRNA126016 3643524 3 163275 163334 Aspergillus coremiiformis 138285 GAT|GTAAGCTGTA...GATCCCACAGCC/GAATAACTGACC...AACAG|CTA 2 1 14.87
18157741 GT-AG 0 0.0003232857853279 60 rna-gnl|WGS:STFN|BDV28DRAFT_mRNA126016 3643524 4 163420 163479 Aspergillus coremiiformis 138285 ATC|GTATGTGATC...CTAACTATCACG/AGATGGCTAACT...CCCAG|ACC 0 1 23.353
18157742 GT-AG 0 0.0036507567756246 57 rna-gnl|WGS:STFN|BDV28DRAFT_mRNA126016 3643524 5 163573 163629 Aspergillus coremiiformis 138285 GAC|GTATGTCACT...TTCGCTTTGCCC/CCAACACTGACA...AGTAG|CTC 0 1 32.635
18157743 GT-AG 0 1.000000099473604e-05 65 rna-gnl|WGS:STFN|BDV28DRAFT_mRNA126016 3643524 6 163825 163889 Aspergillus coremiiformis 138285 CAT|GTAAGTTACT...CACTACTCAACA/ACACTACTCAAC...GATAG|CTC 0 1 52.096

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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]);