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)

10 rows where transcript_id = 34724163

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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
195653859 GT-AG 0 1.000000099473604e-05 298 rna-XM_010533587.2 34724163 1 315591 315888 Tarenaya hassleriana 28532 CAG|GTTCTACCTT...TTTTCCTTACAT/ATTTTCCTTACA...CGCAG|GTG 0 1 6.452
195653860 GT-AG 0 1.000000099473604e-05 185 rna-XM_010533587.2 34724163 2 315329 315513 Tarenaya hassleriana 28532 AAA|GTAAGTGAAA...TGTTTCTTATAT/ATGTTTCTTATA...TGTAG|GCG 2 1 8.751
195653861 GT-AG 0 1.000000099473604e-05 255 rna-XM_010533587.2 34724163 3 314824 315078 Tarenaya hassleriana 28532 GAG|GTCGGTATAC...ATGATTTTGTCA/GATTTTGTCATT...TGCAG|CTT 0 1 16.219
195653862 GT-AG 0 0.0006752550631548 173 rna-XM_010533587.2 34724163 4 314024 314196 Tarenaya hassleriana 28532 GTG|GTAACTGTTT...TGCTTTCTAACC/CCATTGTTCATT...GGCAG|GTC 0 1 34.946
195653863 GT-AG 0 0.0101293205406585 218 rna-XM_010533587.2 34724163 5 313632 313849 Tarenaya hassleriana 28532 GAG|GTACTCTCTT...CAATCCTGAACT/ATGTGCATCACT...CCTAG|GAT 0 1 40.143
195653864 GT-AG 0 1.000000099473604e-05 92 rna-XM_010533587.2 34724163 6 313413 313504 Tarenaya hassleriana 28532 AGG|GTTTGTAACA...GTAGCTTTCACA/GTAGCTTTCACA...CTCAG|AAT 1 1 43.937
195653865 GT-AG 0 0.0001787446468101 154 rna-XM_010533587.2 34724163 7 313149 313302 Tarenaya hassleriana 28532 AAA|GTACGCGCCT...GATTTCTTTCCT/TTGTGAATGACC...TGAAG|GTG 0 1 47.222
195653866 GT-AG 0 0.0003440841965859 444 rna-XM_010533587.2 34724163 8 312504 312947 Tarenaya hassleriana 28532 AAG|GTACTCATTA...TATTCCCAAATT/AATTAATTTATT...TATAG|GTA 0 1 53.226
195653867 GT-AG 0 0.0046231460103983 203 rna-XM_010533587.2 34724163 9 311336 311538 Tarenaya hassleriana 28532 GAG|GTAAACTTTC...TTTCTTTTAATT/TTTCTTTTAATT...TGCAG|CAT 2 1 82.049
195653868 GT-AG 0 1.000000099473604e-05 181 rna-XM_010533587.2 34724163 10 310891 311071 Tarenaya hassleriana 28532 GAG|GTCAGTTATT...GTTTTCTTGACT/GTTTTCTTGACT...ATCAG|ATG 2 1 89.934

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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]);