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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)

9 rows where transcript_id = 34480499

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Suggested facets: dinucleotide_pair, score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
193750941 GT-AG 0 1.000000099473604e-05 58 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482328 34480499 1 1959333 1959390 Syncephalastrum racemosum 13706 CAG|GTAGAGAAAG...GGGCTCTCATCC/TGGGCTCTCATC...AATAG|CTC 0 1 0.836
193750942 GT-AG 0 1.000000099473604e-05 71 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482328 34480499 2 1959599 1959669 Syncephalastrum racemosum 13706 GAG|GTGAGTCTAT...CATCCATTGACT/CATTGACTCACT...GGTAG|CGC 1 1 4.975
193750943 GT-AG 0 1.000000099473604e-05 53 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482328 34480499 3 1960587 1960639 Syncephalastrum racemosum 13706 CGC|GTAAGTACTA...CCAAACTTACTC/AACTTACTCACT...TAAAG|GGC 0 1 23.224
193750944 GT-AG 0 0.0005416061118152 57 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482328 34480499 4 1961348 1961404 Syncephalastrum racemosum 13706 CGT|GTAAGTCTCC...CGCTCCTTGACC/CGCTCCTTGACC...TATAG|GCA 0 1 37.313
193750945 GT-AG 0 0.0004234436826187 48 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482328 34480499 5 1961658 1961705 Syncephalastrum racemosum 13706 AGG|GTATGCAGCT...AATATCATATAT/AATTGGCTCACA...GCTAG|GCC 1 1 42.348
193750946 GC-AG 0 1.000000099473604e-05 50 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482328 34480499 6 1961870 1961919 Syncephalastrum racemosum 13706 AAG|GCAAGTCAGC...GCGCTCTTGACT/TCTTGACTGACT...TGTAG|GAA 0 1 45.612
193750947 GT-AG 0 0.0002603927501932 62 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482328 34480499 7 1962322 1962383 Syncephalastrum racemosum 13706 GAG|GTATGCATAT...ATGGTCTACATG/AAGGTGCTGACG...TCTAG|TTT 0 1 53.612
193750948 GT-AG 0 1.000000099473604e-05 51 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482328 34480499 8 1962609 1962659 Syncephalastrum racemosum 13706 AAT|GTAAGTCACC...CGTGGCTCATCC/ACGTGGCTCATC...AATAG|ATC 0 1 58.09
193750949 GT-AG 0 1.000000099473604e-05 51 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482328 34480499 9 1962843 1962893 Syncephalastrum racemosum 13706 AAG|GTGAGCGTAA...CGGATTTTGATC/CGGATTTTGATC...TCTAG|TCT 0 1 61.731

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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 26.877ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)