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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 = 2279656

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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
12240182 GT-AG 0 7.002171034383939e-05 66 rna-XM_027998173.1 2279656 2 4612445 4612510 Aphis gossypii 80765 AAA|GTAATGTTTT...ATTATCTTAAAT/TATTTACTTATA...TGTAG|GAA 2 1 19.578
12240183 GT-AG 0 0.0002465066407098 173 rna-XM_027998173.1 2279656 3 4612678 4612850 Aphis gossypii 80765 CAA|GTAAATTTTA...TTTTCTATATTT/TTTTTTTTCATG...TTCAG|GTT 1 1 29.367
12240184 GT-AG 0 1.000000099473604e-05 470 rna-XM_027998173.1 2279656 4 4613123 4613592 Aphis gossypii 80765 GAG|GTAAGATGTT...AAAATTTTATAA/CAAAATTTTATA...TTAAG|ATT 0 1 45.311
12240185 GT-AG 0 0.0087791800703684 166 rna-XM_027998173.1 2279656 5 4613730 4613895 Aphis gossypii 80765 CAC|GTATGTATTG...AGCAACTTAATA/TAATAATTAATA...TCTAG|ATT 2 1 53.341
12240186 GT-AG 0 1.000000099473604e-05 66 rna-XM_027998173.1 2279656 6 4614121 4614186 Aphis gossypii 80765 AAG|GTAAATAATG...TTTAATTTAATG/ATTTTACTAATA...TCAAG|GTT 2 1 66.53
12240187 GT-AG 0 0.0005329646093506 58 rna-XM_027998173.1 2279656 7 4614403 4614460 Aphis gossypii 80765 TAA|GTAAGTTTAT...TATACCTTGAAT/TAATTTATAACC...TTTAG|ATT 2 1 79.191
12240607 GT-AG 0 0.0681420897883073 97 rna-XM_027998173.1 2279656 1 4612246 4612342 Aphis gossypii 80765 AAT|GTATTTTACT...TTACTCTCAACT/TTAATGCTTACT...TTCAG|TGA   0 16.647

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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 35.098ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)