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)

7 rows where transcript_id = 16807686

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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
89547603 GT-AG 0 1.000000099473604e-05 993 rna-XR_718249.1 16807686 1 28195 29187 Haliaeetus albicilla 8969 AAG|GTACAAGAGT...CTTTCCTTATCT/CTTATCTTCACA...CTCAG|GCA   0 16.852
89547604 GT-AG 0 1.000000099473604e-05 1921 rna-XR_718249.1 16807686 2 26135 28055 Haliaeetus albicilla 8969 AAA|GTATGAGCAA...AGTATTTTAGAA/CCCCTTTTCATT...CACAG|AGG   0 19.882
89547605 GT-AG 0 1.000000099473604e-05 980 rna-XR_718249.1 16807686 3 25029 26008 Haliaeetus albicilla 8969 CAG|GTAATTCTGG...TGCTTGTTAGTG/GTGCTTGTTAGT...TGTAG|GGC   0 22.629
89547606 GT-AG 0 1.000000099473604e-05 92 rna-XR_718249.1 16807686 4 24674 24765 Haliaeetus albicilla 8969 GAG|GTAAGGGGGG...ATACCTTTAAAT/ATTGTTGTTACC...TCGAG|TTG   0 28.363
89547607 GT-AG 0 1.000000099473604e-05 329 rna-XR_718249.1 16807686 5 24204 24532 Haliaeetus albicilla 8969 CAG|GTAGAATCCA...ACAGTGTTGATA/ACAGTGTTGATA...TACAG|GGG   0 31.437
89547608 GT-AG 0 2.213136309958165e-05 13494 rna-XR_718249.1 16807686 6 10655 24148 Haliaeetus albicilla 8969 TGG|GTAATTATTT...TCTGTCTTGTTT/TAGGGACTCAAG...ACCAG|GAG   0 32.636
89547609 GT-AG 0 1.000000099473604e-05 1632 rna-XR_718249.1 16807686 7 8922 10553 Haliaeetus albicilla 8969 AGG|GTAAGTACTA...ATCTCATTATTA/ATTATTATTACT...CACAG|GTG   0 34.838

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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]);