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 = 29894896

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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
167376175 GT-AG 0 0.0009263565952735 11687 rna-XM_009333966.1 29894896 1 858033 869719 Pygoscelis adeliae 9238 CCC|GTAGCGACCT...TCATCCTCACCC/TTCATCCTCACC...TGCAG|GAT 0 1 4.826
167376176 GT-AG 0 1.000000099473604e-05 1005 rna-XM_009333966.1 29894896 2 856856 857860 Pygoscelis adeliae 9238 CAG|GTAATTGTAT...TTCTTCTTCTCT/GAGCCATGCACT...CAAAG|GAG 1 1 15.894
167376177 GT-AG 0 1.7893378072407456e-05 133 rna-XM_009333966.1 29894896 3 856515 856647 Pygoscelis adeliae 9238 GGG|GTAAGCTGAT...CGGCTCTTTCCA/GCTCTTTCCATC...CACAG|GTC 2 1 29.279
167376178 GT-AG 0 3.29009839817279e-05 259 rna-XM_009333966.1 29894896 4 856105 856363 Pygoscelis adeliae 9238 GCG|GTACGTCCCG...TCTGCCTTCCCC/GGCTTTGCCACT...TGCAG|GAC 0 1 38.996
167376179 GT-AG 0 5.559156960983568e-05 1755 rna-XM_009333966.1 29894896 6 853452 855206 Pygoscelis adeliae 9238 TGG|GTAGCAAGGA...GCTCCTGTGAAC/TGGGTTTGCACT...TCCAG|TCA 0 1 60.811
167376180 GT-AG 0 1.000000099473604e-05 1606 rna-XM_009333966.1 29894896 7 851713 853318 Pygoscelis adeliae 9238 TAG|GTAATAATTT...CATCCCATGATG/AGCAGCTTCACT...GGCAG|GAG 1 1 69.369
167376181 GT-AG 0 0.0005404975433955 776 rna-XM_009333966.1 29894896 8 850815 851590 Pygoscelis adeliae 9238 TGG|GTATGTACCC...GTTTCTTTTTCT/GGACTTGTCATG...TGCAG|GTC 0 1 77.22
167376182 GT-AG 0 1.000000099473604e-05 4621 rna-XM_009333966.1 29894896 9 846014 850634 Pygoscelis adeliae 9238 GAG|GTAGGAAATG...TTTTCTTTCTTT/CATGTGCTAAAT...TGGAG|GTC 0 1 88.803

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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]);