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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)

6 rows where transcript_id = 34480531

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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
193751262 GT-AG 0 1.000000099473604e-05 80 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559848 34480531 1 2404721 2404800 Syncephalastrum racemosum 13706 AAT|GTAAATGAGT...GTCTTTTTATTT/TTTTTATTTATC...CTTAG|CAT 0 1 3.722
193751263 GT-AG 0 0.0010772469972483 58 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559848 34480531 2 2404999 2405056 Syncephalastrum racemosum 13706 AGA|GTAAGCTAGA...CCATTTTTGATT/CCATTTTTGATT...AGCAG|GAC 0 1 9.061
193751264 GT-AG 0 2.014428732160821e-05 56 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559848 34480531 3 2405156 2405211 Syncephalastrum racemosum 13706 ACC|GTGCGTTGAA...TAATTTTTACTC/TTTTTACTCATG...CGTAG|AAG 0 1 11.731
193751265 GT-AG 0 0.00198456827545 59 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559848 34480531 4 2405435 2405493 Syncephalastrum racemosum 13706 GCG|GTATGTCACT...ACATCCTTATAT/CAAAATCTCACC...TCTAG|TTC 1 1 17.745
193751266 GT-AG 0 2.845274089873445e-05 62 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559848 34480531 5 2405937 2405998 Syncephalastrum racemosum 13706 GAG|GTACTTCGGC...TCATCCTAATCT/TTCATCCTAATC...CTTAG|GGC 0 1 29.693
193751267 GT-AG 0 1.000000099473604e-05 55 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559848 34480531 6 2408225 2408279 Syncephalastrum racemosum 13706 AAG|GTGATTCGGA...GAATCTGTATAT/TGGATGCTGATC...TCTAG|ATG 0 1 89.725

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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 28.787ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)