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 = 7738677

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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
40790793 GT-AG 0 4.266877557799735e-05 19643 rna-XM_009885003.1 7738677 1 29257 48899 Charadrius vociferus 50402 CCA|GTAAGTATGG...TCTCCTTTCACT/AAAATGTTCATT...TTCAG|ATG 0 1 17.178
40790794 GT-AG 0 2.988098293496208e-05 5516 rna-XM_009885003.1 7738677 2 23570 29085 Charadrius vociferus 50402 TCA|GTAAGTAATG...TACATTTTAAAA/TTTCGATTAATA...TTTAG|CCA 0 1 34.663
40790795 GT-AG 0 0.0001896035995328 2112 rna-XM_009885003.1 7738677 3 21296 23407 Charadrius vociferus 50402 GTT|GTAAGTATTG...ATTTCATTATTA/TCATTATTAAAT...TACAG|CCT 0 1 51.227
40790796 GT-AG 0 3.6018359467442886e-05 2063 rna-XM_009885003.1 7738677 4 19126 21188 Charadrius vociferus 50402 GCT|GTAAGTCCAA...TGAGTCTTACTG/TTGAGTCTTACT...GGCAG|ATC 2 1 62.168
40790797 GT-AG 0 1.000000099473604e-05 1357 rna-XM_009885003.1 7738677 5 17684 19040 Charadrius vociferus 50402 GAG|GTTAGTGCGT...AATTCCTTGTTT/GCTTGTTTGAAC...CATAG|GCA 0 1 70.859
40790798 GT-AG 0 1.000000099473604e-05 1121 rna-XM_009885003.1 7738677 6 16441 17561 Charadrius vociferus 50402 ATT|GTAAGTACAT...TTGTTGTTAAAT/TTGTTGTTAAAT...TTTAG|GTG 2 1 83.333
40790799 GT-AG 0 1.000000099473604e-05 1204 rna-XM_009885003.1 7738677 7 15137 16340 Charadrius vociferus 50402 AAG|GTAAATAAAA...TTTCTTTTATTT/CTTTCTTTTATT...TACAG|GCT 0 1 93.558

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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]);