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 = 17285683

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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
92354257 GT-AG 0 0.0001511247053949 58 rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1365117 17285683 1 450455 450512 Hesseltinella vesiculosa 101127 TCC|GTAAGCCCAG...CCCTTTTTACTC/TTTTTACTCACG...TTTAG|AAC 2 1 7.157
92354258 GT-AG 0 1.000000099473604e-05 60 rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1365117 17285683 2 449763 449822 Hesseltinella vesiculosa 101127 CGG|GTAAAAGGAA...TTTTTCTTGCCT/GGATCTCTCACT...CTAAG|CCT 1 1 24.965
92354259 GT-AG 0 7.406614308693273e-05 84 rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1365117 17285683 3 449501 449584 Hesseltinella vesiculosa 101127 ACG|GTAACAGCAA...CCACTCTTGACA/TTTTTTGTGATA...ACTAG|CAA 2 1 29.98
92354260 GT-AG 0 1.000000099473604e-05 92 rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1365117 17285683 4 448318 448409 Hesseltinella vesiculosa 101127 CAG|GTAAAGCACG...GTCCTCTTTCTT/GGCTAGCTCACG...GATAG|TCA 1 1 60.721
92354261 GT-AG 0 0.0080849416408138 62 rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1365117 17285683 5 448008 448069 Hesseltinella vesiculosa 101127 ACC|GTAACGTGCA...TGTTTCTTTTTT/CACAGGCTCACC...CACAG|CTG 0 1 67.709
92354262 GT-AG 0 5.294380518163578e-05 74 rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1365117 17285683 6 446902 446975 Hesseltinella vesiculosa 101127 AAG|GTACGCCCGG...TTTTTTTTTTCA/TTTTTTTTCAAA...TTTAG|CTG 0 1 96.788

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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]);