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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 = 34480540

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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
193751328 GT-AG 0 1.000000099473604e-05 57 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559548 34480540 1 1380878 1380934 Syncephalastrum racemosum 13706 AAG|GTCAGGAAAT...GTTCTCATAGTC/TCAGTTCTCATA...AATAG|GTG 1 1 5.427
193751329 GT-AG 0 1.000000099473604e-05 74 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559548 34480540 2 1381249 1381322 Syncephalastrum racemosum 13706 CAG|GTGTGACAGT...CACTTTTTGACG/CACTTTTTGACG...TCTAG|ATG 0 1 14.396
193751330 GT-AG 0 1.000000099473604e-05 60 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559548 34480540 3 1381506 1381565 Syncephalastrum racemosum 13706 ATG|GTGCGTATCA...ACAATTATGATT/GAAGGTCTGACA...TTTAG|CGG 0 1 19.623
193751331 GT-AG 0 1.000000099473604e-05 64 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559548 34480540 4 1381680 1381743 Syncephalastrum racemosum 13706 AAG|GTACTTGAGG...TATGACATAACA/CATCTACTAACT...CGCAG|GCC 0 1 22.879
193751332 GT-AG 0 1.000000099473604e-05 68 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559548 34480540 5 1381894 1381961 Syncephalastrum racemosum 13706 AAA|GTTAGTATAA...CTTACATTAATA/CTTACATTAATA...CGCAG|CTG 0 1 27.164
193751333 GT-AG 0 1.000000099473604e-05 61 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559548 34480540 6 1382149 1382209 Syncephalastrum racemosum 13706 AAG|GTAAAGCAGT...GCAGCTTTAGCT/CTTTAGCTGATG...AATAG|TTC 1 1 32.505
193751334 GT-AG 0 1.000000099473604e-05 67 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559548 34480540 7 1383973 1384039 Syncephalastrum racemosum 13706 ATG|GTACGGCATA...AGTGTCTTGCAA/ACGACAATGATT...TCTAG|CTT 0 1 82.862
193751335 GT-AG 0 1.000000099473604e-05 63 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559548 34480540 8 1384067 1384129 Syncephalastrum racemosum 13706 AAG|GTAATGGCAT...TGTGTCCTATTA/AAGATGCTCACT...TATAG|AGT 0 1 83.633

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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 23.759ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)