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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)

7 rows where transcript_id = 2279655

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Suggested facets: dinucleotide_pair, score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
12240175 GC-AG 0 1.000000099473604e-05 115 rna-XM_027997917.1 2279655 1 4653004 4653118 Aphis gossypii 80765 GAG|GCAAGTAAAA...TATATTTTACTT/TTATATTTTACT...AATAG|AAA 2 1 17.018
12240176 GT-AG 0 1.000000099473604e-05 64 rna-XM_027997917.1 2279655 2 4653237 4653300 Aphis gossypii 80765 CAA|GTGAGTTGTT...TTTATCTTATTT/TTTTATCTTATT...AATAG|GCT 0 1 25.316
12240177 GT-AG 0 7.696436992613206e-05 94 rna-XM_027997917.1 2279655 3 4653445 4653538 Aphis gossypii 80765 TTG|GTATAGAATA...TTCTACTTAAAA/ATTCTACTTAAA...ATTAG|GAG 0 1 35.443
12240178 GT-AG 0 1.000000099473604e-05 94 rna-XM_027997917.1 2279655 4 4653800 4653893 Aphis gossypii 80765 AAG|GTTCGATAGA...ATGACTTTGAAC/GTATTTATGACT...TGCAG|GAA 0 1 53.797
12240179 GT-AG 0 1.000000099473604e-05 1543 rna-XM_027997917.1 2279655 5 4654062 4655604 Aphis gossypii 80765 ATG|GTAAGTTTAT...TAATTTTTGTCT/CAACAATTAATT...TGCAG|GTT 0 1 65.612
12240180 GT-AG 0 1.000000099473604e-05 90 rna-XM_027997917.1 2279655 6 4655692 4655781 Aphis gossypii 80765 AAA|GTAAGTAGAT...TAATATTTGACA/TAATATTTGACA...TTTAG|ATG 0 1 71.73
12240181 GT-AG 0 1.000000099473604e-05 1683 rna-XM_027997917.1 2279655 7 4655992 4657674 Aphis gossypii 80765 GAG|GTAAACGCGT...GAACTCATAATT/TTAGAACTCATA...TTCAG|GCT 0 1 86.498

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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 24.139ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)