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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 = 2279667

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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
12240240 GT-AG 0 0.00045859468029 1134 rna-XM_027987926.1 2279667 2 3155850 3156983 Aphis gossypii 80765 AAA|GTAAGCATTT...TCAGTTTTAATA/ATATTGCTTACA...TTTAG|GTA 0 1 18.086
12240241 GT-AG 0 4.7674760985938514e-05 751 rna-XM_027987926.1 2279667 3 3157139 3157889 Aphis gossypii 80765 AAA|GTAAGTTACA...TCATTTTTATTT/ATTGTATTCATT...TTCAG|ATT 2 1 28.994
12240242 GT-AG 0 0.0002245061757765 63 rna-XM_027987926.1 2279667 4 3157981 3158043 Aphis gossypii 80765 CCA|GTAAGCCATA...ATTTCATTATTA/ATTAATTTCATT...TTTAG|ATA 0 1 35.398
12240243 GT-AG 0 5.028875253861372e-05 81 rna-XM_027987926.1 2279667 5 3158235 3158315 Aphis gossypii 80765 ACA|GTAAGTTCAA...TTTATGTTATCA/ATTTATTTTATG...CTTAG|AAT 2 1 48.839
12240244 GT-AG 0 0.0282890718762237 62 rna-XM_027987926.1 2279667 6 3158548 3158609 Aphis gossypii 80765 ATG|GTATAGTTTT...TATATCTTAATT/TCTTAATTCATT...TTTAG|ACT 0 1 65.165
12240245 GT-AG 0 0.0002925113113597 64 rna-XM_027987926.1 2279667 7 3158691 3158754 Aphis gossypii 80765 TCT|GTAAGTTAAT...TTTGTTTTAAAC/TTTGTTTTAAAC...TTTAG|ATT 0 1 70.866
12240246 GT-AG 0 1.000000099473604e-05 79 rna-XM_027987926.1 2279667 8 3159028 3159106 Aphis gossypii 80765 AAG|GTAATTACTA...TATATTTTATAT/TTATATTTTATA...TGTAG|GGT 0 1 90.077
12240614 GT-AG 0 1.0789350100601858e-05 339 rna-XM_027987926.1 2279667 1 3155412 3155750 Aphis gossypii 80765 AAG|GTACGTCCGC...ATGTTTTTACAC/TATGTTTTTACA...AAAAG|ATG   0 11.119

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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 28.265ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)