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 = 1028914

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
5357371 GT-AG 0 0.0001325356505837 592 rna-AFUS01_LOCUS3 1028914 1 16142 16733 Allacma fusca 39272 TCT|GTAAGTTGTC...TGTGTGTTGAAG/TGTGTGTTGAAG...TACAG|ATG 1 1 10.425
5357372 GT-AG 0 1.000000099473604e-05 99 rna-AFUS01_LOCUS3 1028914 2 16932 17030 Allacma fusca 39272 GCG|GTAAGATAGT...TAGTTAGTAATC/TAGTTAGTAATC...TACAG|GTG 1 1 23.572
5357373 GT-AG 0 1.000000099473604e-05 104 rna-AFUS01_LOCUS3 1028914 3 17303 17406 Allacma fusca 39272 AAG|GTAATTTGAA...GGTTCCTAGACC/TTGATATTTATT...TATAG|TTC 0 1 41.633
5357374 GT-AG 0 0.0004748127336966 285 rna-AFUS01_LOCUS3 1028914 4 17638 17922 Allacma fusca 39272 AGA|GTAAGCATGA...CATTCTTTATTG/TATTTATTGACA...CGTAG|GTT 0 1 56.972
5357375 GT-AG 0 6.110187200392532e-05 113 rna-AFUS01_LOCUS3 1028914 5 18301 18413 Allacma fusca 39272 AAA|GTAATTGCTG...ATTTTCTTAAAA/TATTTTCTTAAA...TATAG|TTG 0 1 82.072
5357376 GT-AG 0 0.0009972625666793 96 rna-AFUS01_LOCUS3 1028914 6 18543 18638 Allacma fusca 39272 CAG|GTATTTATTC...TTTCCTTTGGAT/GATTGAATCATT...AACAG|GTT 0 1 90.637
5357377 GT-AG 0 1.000000099473604e-05 146 rna-AFUS01_LOCUS3 1028914 7 18729 18874 Allacma fusca 39272 CAG|GTATGAACTA...GTGATTTTTGTG/AAATATATAACA...TTTAG|GCC 0 1 96.614

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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]);