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)

6 rows where transcript_id = 19749024

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Suggested facets: dinucleotide_pair, score

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
105762281 GT-AG 0 1.7402497707097192e-05 2937 gene-LOC103082158 19749024 1 65953 68889 Lipotes vexillifer 118797 AGG|GTAGCGCGTC...AGTATGTTAGAG/CAGAGCCTGACA...CATAG|GTG   0 8.095
105762282 GT-AG 0 1.000000099473604e-05 4040 gene-LOC103082158 19749024 2 61868 65907 Lipotes vexillifer 118797 TGC|GTTGTACTTA...GGGTCTTTGTTT/CTTCTAATGACT...GGCAG|CTG   0 11.774
105762283 GT-AG 0 1.000000099473604e-05 447 gene-LOC103082158 19749024 3 61267 61713 Lipotes vexillifer 118797 AAG|GTATGGGGTG...TTGTGCTTAAGG/TTTGTGCTTAAG...TTCAG|GAG   0 24.366
105762284 GT-AG 0 1.000000099473604e-05 2482 gene-LOC103082158 19749024 4 58667 61148 Lipotes vexillifer 118797 GAG|GTGAGCTGTC...GTTACATTAACT/GTTACATTAACT...CCTAG|GGC   0 34.015
105762285 GT-AG 0 1.000000099473604e-05 27307 gene-LOC103082158 19749024 5 31156 58462 Lipotes vexillifer 118797 CTG|GTGAGTGACC...TGTACCTTGTTC/TTCTGGTTAATT...AACAG|GGA   0 50.695
105762286 GC-AG 0 1.000000099473604e-05 840 gene-LOC103082158 19749024 6 30231 31070 Lipotes vexillifer 118797 AAG|GCGAAGGACC...CTTCCCTTTGCC/CCTCCATTCACT...AACAG|CAT   0 57.645

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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]);