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 = 1028952

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
5357622 GT-AG 0 1.8819416292092968e-05 921 rna-AFUS01_LOCUS51 1028952 1 99479 100399 Allacma fusca 39272 AGA|GTAAGTAGTG...TGGTTTTTGATT/TTTTGATTCATT...TTTAG|GTT 1 1 6.886
5357623 GT-AG 0 1.000000099473604e-05 1735 rna-AFUS01_LOCUS51 1028952 2 100624 102358 Allacma fusca 39272 GAC|GTGAGTTTTT...ATGTTTTTATGC/AATGTTTTTATG...CATAG|CCA 0 1 24.413
5357624 GT-AG 0 0.0025463007904242 267 rna-AFUS01_LOCUS51 1028952 3 102683 102949 Allacma fusca 39272 CAG|GTATGCCTTC...AGGCCTCTGACG/TTTTTTCCAATT...CCCAG|GCG 0 1 49.765
5357625 GC-AG 0 1.000000099473604e-05 221 rna-AFUS01_LOCUS51 1028952 4 103195 103415 Allacma fusca 39272 CAG|GCAAGTTAGC...TATGTTGTGACG/TATGTTGTGACG...TTTAG|GAG 2 1 68.936
5357626 GT-AG 0 1.000000099473604e-05 256 rna-AFUS01_LOCUS51 1028952 5 103629 103884 Allacma fusca 39272 TCG|GTGAGGAGCT...CATCTCTTTCCT/GCTTGTTTCACA...TCCAG|GCA 2 1 85.603
5357627 GT-AG 0 1.000000099473604e-05 1946 rna-AFUS01_LOCUS51 1028952 6 103932 105877 Allacma fusca 39272 CAA|GTCAAGTTTG...TGTTCCTTGCAT/AATAAATGCACT...CACAG|ACG 1 1 89.28
5357628 GT-AG 0 1.438422319437566e-05 73 rna-AFUS01_LOCUS51 1028952 7 105908 105980 Allacma fusca 39272 AAG|GTAAATTTTT...TTCACCCTACTT/CTTCCATTCATT...TGTAG|GGT 1 1 91.628

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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]);