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)

9 rows where transcript_id = 25439169

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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
140325343 GT-AG 0 0.0191375487259011 140 rna-XM_015784847.2 25439169 1 8699271 8699410 Oryza sativa 4530 TCG|GTAACCCCCC...GATTTCTGATTT/AGATTTCTGATT...GGAAG|ACG 0 1 1.188
140325344 GT-AG 0 1.000000099473604e-05 761 rna-XM_015784847.2 25439169 2 8698420 8699180 Oryza sativa 4530 GAG|GTGAGCGCGG...TACTTCTGAACT/TGTTTGCTTACT...TGCAG|GTC 0 1 3.415
140325345 GT-AG 0 0.0230317714080768 162 rna-XM_015784847.2 25439169 3 8698205 8698366 Oryza sativa 4530 ATG|GTACGTTTCT...GTTCCCTTAACA/ACCATACTTATG...ACCAG|GTA 2 1 4.727
140325346 GT-AG 0 0.0398522161373777 573 rna-XM_015784847.2 25439169 4 8697556 8698128 Oryza sativa 4530 CAG|GTATCTCGCT...ATTTCTTCAATG/CATTTCTTCAAT...TGCAG|GAT 0 1 6.607
140325347 GT-AG 0 0.0003750109101614 79 rna-XM_015784847.2 25439169 5 8697415 8697493 Oryza sativa 4530 TCA|GTAAAGTTTC...GAAATCTTATTT/TGAAATCTTATT...TTTAG|GTT 2 1 8.142
140325348 GT-AG 0 0.0006472547513713 77 rna-XM_015784847.2 25439169 6 8697259 8697335 Oryza sativa 4530 AAG|GTACTTACTG...ATTTCTTTAATT/ATTTCTTTAATT...TCTAG|CTG 0 1 10.097
140325349 GT-AG 0 1.5446438460573303e-05 93 rna-XM_015784847.2 25439169 7 8697106 8697198 Oryza sativa 4530 GAT|GTGAGCTTCC...CCCAGCTTAATT/CTACATTTGATT...TGTAG|GTG 0 1 11.581
140325350 GT-AG 0 1.000000099473604e-05 1012 rna-XM_015784847.2 25439169 8 8694510 8695521 Oryza sativa 4530 CAG|GTCAGAAACT...TGTGTTTTATTA/TTGTGTTTTATT...TGCAG|GTT 0 1 50.78
140325351 GT-AG 0 0.0008741992178143 209 rna-XM_015784847.2 25439169 9 8693431 8693639 Oryza sativa 4530 CAG|GTATGATCTA...TATTTTTTAACA/TATTTTTTAACA...TCCAG|GCT 0 1 72.309

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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]);