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 = 33313375

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
186657563 GT-AG 0 4.645253508075741e-05 438 rna-XM_010317080.3 33313375 2 97789588 97790025 Solanum lycopersicum 4081 CTG|GTACTTACCA...GCATTCTTATGA/TTTAAATTCATA...TCCAG|TTC 0 1 61.57
186657564 GT-AG 0 1.000000099473604e-05 1335 rna-XM_010317080.3 33313375 3 97788100 97789434 Solanum lycopersicum 4081 GAG|GTTGGTGATT...TTTGTGTTAGTA/ATTTGTGTTAGT...TTCAG|GAA 0 1 65.785
186657565 GT-AG 0 1.000000099473604e-05 427 rna-XM_010317080.3 33313375 4 97787205 97787631 Solanum lycopersicum 4081 CAG|GTTAGTCCTG...AACTTGTTGATC/TTGTTGATCATT...TGCAG|AAT 0 1 78.678
186657566 GT-AG 0 0.0144459109811594 192 rna-XM_010317080.3 33313375 5 97786943 97787134 Solanum lycopersicum 4081 CAG|GTATTTATCA...TCAGCTTTAACA/TCAGCTTTAACA...TTCAG|ATG 1 1 80.606
186657567 GT-AG 0 0.0033288238394728 96 rna-XM_010317080.3 33313375 6 97786707 97786802 Solanum lycopersicum 4081 CCA|GTAAGCTTAC...TTCATTTTAAAG/TAATTTTTCAAA...TGCAG|TTA 0 1 84.463
186657568 GT-AG 0 1.000000099473604e-05 978 rna-XM_010317080.3 33313375 7 97785417 97786394 Solanum lycopersicum 4081 AAG|GTAATTGATA...TATGCTTTACTG/CTATGCTTTACT...AATAG|GAT 0 1 93.058
186670878 GT-AG 0 0.029354512770229 1127 rna-XM_010317080.3 33313375 1 97792114 97793240 Solanum lycopersicum 4081 AAG|GTATATTCGT...TTTCTCTTAGTC/TTTCTTGTGATT...GTTAG|ATG   0 4.05

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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]);