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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)

8 rows where transcript_id = 2279602

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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
12239804 GT-AG 0 1.922545460522072e-05 2570 rna-XM_027989428.1 2279602 1 5158114 5160683 Aphis gossypii 80765 CGT|GTAAGTATGT...TTAAGCTTAAAA/TATAAACTCATT...TTCAG|AAG 2 1 8.584
12239805 GT-AG 0 1.000000099473604e-05 66 rna-XM_027989428.1 2279602 2 5160835 5160900 Aphis gossypii 80765 AAA|GTAAAATATT...AATTTTTTATAA/TCTCTATTCATC...AATAG|GTG 0 1 15.163
12239806 GT-AG 0 1.000000099473604e-05 61 rna-XM_027989428.1 2279602 3 5161066 5161126 Aphis gossypii 80765 CAA|GTAAGTCTAA...AATTCATTAAAC/AAAAAATTCATT...TTCAG|TCT 0 1 22.353
12239807 GT-AG 0 1.000000099473604e-05 82 rna-XM_027989428.1 2279602 4 5161403 5161484 Aphis gossypii 80765 AAT|GTAAAAACTA...AATTTGTTAATT/AATTTGTTAATT...TCTAG|ACT 0 1 34.379
12239808 GT-AG 0 3.261705086298016e-05 58 rna-XM_027989428.1 2279602 5 5161737 5161794 Aphis gossypii 80765 CAA|GTAAAGTATT...TAATTTTTAATT/ATTTTATTAATT...TTCAG|ATG 0 1 45.359
12239809 GT-AG 0 1.000000099473604e-05 983 rna-XM_027989428.1 2279602 6 5161940 5162922 Aphis gossypii 80765 CTG|GTAATAGGTT...ATTATTTTAAAT/ATTATTTTAAAT...TTTAG|TTG 1 1 51.678
12239810 GT-AG 0 8.319407758340125e-05 82 rna-XM_027989428.1 2279602 7 5163063 5163144 Aphis gossypii 80765 CGT|GTACTAATAA...AATTCTTTCATT/TATTTATTTATT...TCTAG|AAT 0 1 57.778
12239811 GT-AG 0 1.836865774939469e-05 86 rna-XM_027989428.1 2279602 8 5163233 5163318 Aphis gossypii 80765 GAG|GTACTTGCAT...ATGGTTTTATTT/GTTATACTTATA...TACAG|ATG 1 1 61.612

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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 24.749ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)