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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)

5 rows where transcript_id = 2279669

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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
12240255 GT-AG 0 1.000000099473604e-05 131 rna-XM_027997578.1 2279669 1 1613560 1613690 Aphis gossypii 80765 ATA|GTAAGTCGAT...AATCATTTGATA/AATCATTTGATA...TTCAG|AAA 1 1 59.603
12240256 GT-AG 0 2.920102244499429e-05 151 rna-XM_027997578.1 2279669 2 1613764 1613914 Aphis gossypii 80765 CGT|GTTCGTACTC...AATGTTTTAATA/AATTTACTAATT...TTCAG|GAA 2 1 65.397
12240257 GT-AG 0 1.000000099473604e-05 280 rna-XM_027997578.1 2279669 3 1614015 1614294 Aphis gossypii 80765 GTG|GTAATACAAA...TATATATTAATA/TTAATACTGATA...TAAAG|ATT 0 1 73.333
12240258 GT-AG 0 0.0020119459700376 72 rna-XM_027997578.1 2279669 4 1614415 1614486 Aphis gossypii 80765 AAA|GTAACGTTAA...AACCTTTTATAC/AGTTGATTTATT...AACAG|ATG 0 1 82.857
12240259 GT-AG 0 7.351694566600462e-05 88 rna-XM_027997578.1 2279669 5 1614646 1614733 Aphis gossypii 80765 AGC|GTAATATTAA...CAAATTTTAATA/TTAATTCTTAAT...TTCAG|GTA 0 1 95.476

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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]);
Powered by Datasette · Queries took 24.552ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)