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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)

6 rows where transcript_id = 2279603

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
12239812 GT-AG 0 1.000000099473604e-05 48582 rna-XM_027997828.1 2279603 1 1968904 2017485 Aphis gossypii 80765 AAG|GTGAGCGATA...ATGTTCTTGATG/ATGTTCTTGATG...GACAG|AAG 0 1 6.98
12239813 GT-AG 0 1.000000099473604e-05 32651 rna-XM_027997828.1 2279603 2 2017963 2050613 Aphis gossypii 80765 GTG|GTGAGTTACT...TAATTCTGATTG/ATAATTCTGATT...TGCAG|CAA 0 1 28.322
12239814 GT-AG 0 1.000000099473604e-05 789 rna-XM_027997828.1 2279603 3 2050686 2051474 Aphis gossypii 80765 GAG|GTAAAATTCT...TAATTTTTTTTT/TAAAAACTAATA...TTTAG|GCG 0 1 31.544
12239815 GT-AG 0 1.000000099473604e-05 3093 rna-XM_027997828.1 2279603 4 2051518 2054610 Aphis gossypii 80765 AAG|GTACGTAATG...GAGTTCTAAATT/TCAAATTTGATT...TACAG|GTG 1 1 33.468
12239816 GT-AG 0 1.000000099473604e-05 54996 rna-XM_027997828.1 2279603 5 2054838 2109833 Aphis gossypii 80765 TCG|GTAAGTAATT...CAACCCGTATAT/GTTATGCTCATG...TACAG|GGT 0 1 43.624
12239817 GT-AG 0 1.7222834360638362e-05 10086 rna-XM_027997828.1 2279603 6 2109912 2119997 Aphis gossypii 80765 GAG|GTAAGTTTCG...CTGTTATTAACA/CTGTTATTAACA...TTCAG|CAG 0 1 47.114

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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 28.415ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)