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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)

10 rows where transcript_id = 2279610

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
12239870 GT-AG 0 0.0056772729632733 73 rna-XM_027997471.1 2279610 2 1302397 1302469 Aphis gossypii 80765 AAA|GTATGTATTT...AATTTATTGATA/ATTTAATTTATT...TCTAG|GAA 0 1 6.062
12239871 GT-AG 0 1.000000099473604e-05 167 rna-XM_027997471.1 2279610 3 1302708 1302874 Aphis gossypii 80765 ATG|GTAAATGGTT...TATATTTTATAA/ATATATTTTATA...TTTAG|ATG 1 1 16.91
12239872 GT-AG 0 1.000000099473604e-05 132 rna-XM_027997471.1 2279610 4 1303024 1303155 Aphis gossypii 80765 CAG|GTAGATTCAA...TATATTTTCTCC/TGTAAACTGATA...TGTAG|GAA 0 1 23.701
12239873 GT-AG 0 4.295541502469261e-05 63 rna-XM_027997471.1 2279610 5 1303317 1303379 Aphis gossypii 80765 AAG|GTAATTTTTA...TATTTATTATAT/TTTATATTTATT...ATTAG|ATT 2 1 31.039
12239874 GT-AG 0 1.000000099473604e-05 668 rna-XM_027997471.1 2279610 6 1303516 1304183 Aphis gossypii 80765 TTT|GTAAGGAAAT...GTACTATTAAAC/ATTAAATTGATG...TTCAG|ATC 0 1 37.238
12239875 GT-AG 0 0.0004061493705655 72 rna-XM_027997471.1 2279610 7 1304397 1304468 Aphis gossypii 80765 GAG|GTATGGTTAT...AATATTTTAACT/AATATTTTAACT...TTCAG|GAT 0 1 46.946
12239876 GT-AG 0 0.0002624742361353 114 rna-XM_027997471.1 2279610 8 1304601 1304714 Aphis gossypii 80765 ATT|GTAAGTTTAT...ATATTTTTGTTT/GTTTGTCGTACT...ATTAG|ATG 0 1 52.963
12239877 GT-AG 0 5.669267364402493e-05 59 rna-XM_027997471.1 2279610 9 1304991 1305049 Aphis gossypii 80765 GAG|GTACTTTAAA...AATATATTATTT/ATATTATTTACA...TTTAG|ATT 0 1 65.542
12239878 GT-AG 0 0.0724940814455081 898 rna-XM_027997471.1 2279610 10 1305214 1306111 Aphis gossypii 80765 AGA|GTATGTTTTT...CGAGCCTTGCTT/GTTTTGTTTATG...TTTAG|GCT 2 1 73.017
12240584 GT-AG 0 1.000000099473604e-05 197 rna-XM_027997471.1 2279610 1 1302081 1302277 Aphis gossypii 80765 AAG|GTAAGAACAC...AATTTCTTGAAA/AATGGCTTCAAT...TTCAG|AAT   0 2.507

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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 24.309ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)