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 = 7738676

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Suggested facets: dinucleotide_pair, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
40790785 GT-AG 0 1.000000099473604e-05 353 rna-XM_009884891.1 7738676 2 4661 5013 Charadrius vociferus 50402 CCG|GTACGTGCCC...CTCTCTTTCGCC/TCCAGCGTGACG...TGTAG|GGC 2 1 7.275
40790786 GT-AG 0 1.000000099473604e-05 471 rna-XM_009884891.1 7738676 3 3949 4419 Charadrius vociferus 50402 CAG|GTGAGAGGCC...AAAGTGTTACTT/CAAAGTGTTACT...TCCAG|GGC 0 1 24.465
40790787 GC-AG 0 1.000000099473604e-05 220 rna-XM_009884891.1 7738676 4 3601 3820 Charadrius vociferus 50402 TGT|GCCGAGAGCC...TCCACCGTGACC/TGAGATGTCAAC...CCCAG|ACA 2 1 33.595
40790788 GT-AG 0 1.000000099473604e-05 465 rna-XM_009884891.1 7738676 5 3033 3497 Charadrius vociferus 50402 CAC|GTAGGAGAGG...GCAGTCTTCTCT/TGGGAGTTTACG...TCCAG|CAT 0 1 40.942
40790789 GT-AG 0 1.000000099473604e-05 1190 rna-XM_009884891.1 7738676 6 1673 2862 Charadrius vociferus 50402 TGG|GTGAGTGGGC...TGGTTCTTCTCG/GTGAAACTGATG...CGCAG|CCC 2 1 53.067
40790790 GT-AG 0 1.000000099473604e-05 175 rna-XM_009884891.1 7738676 7 1373 1547 Charadrius vociferus 50402 CAG|GTGAGGCTTG...TCTGCCTTGCTG/AGGAGCTTGAAC...GACAG|GAG 1 1 61.983
40790791 GT-AG 0 1.000000099473604e-05 418 rna-XM_009884891.1 7738676 8 827 1244 Charadrius vociferus 50402 AAG|GTGAGTCCTG...TCTTCTTCAGCC/CTCTTCTTCAGC...CACAG|AGT 0 1 71.113
40790792 GT-AG 0 1.000000099473604e-05 113 rna-XM_009884891.1 7738676 9 611 723 Charadrius vociferus 50402 AAG|GTTAGTGCTG...CTGTCCAAAGCT/CCAAAGCTCAAA...TGCAG|GCT 1 1 78.459

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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]);