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 = 19419616

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
103972369 GT-AG 0 1.000000099473604e-05 9638 rna-XM_017803864.1 19419616 1 7729116 7738753 Lepidothrix coronata 321398 CTG|GTGAGGAGGG...TTGTCCTCATAG/TTTGTCCTCATA...TCCAG|GTT 2 1 20.212
103972370 GT-AG 0 1.000000099473604e-05 4668 rna-XM_017803864.1 19419616 2 7724299 7728966 Lepidothrix coronata 321398 CAG|GTGAGTTCCT...GTTCCTTCAGTA/GTATAATTCATC...TACAG|CTC 1 1 28.532
103972371 GT-AG 0 1.000000099473604e-05 1454 rna-XM_017803864.1 19419616 3 7722680 7724133 Lepidothrix coronata 321398 CAG|GTAAATGTCT...GTTACTTTATTT/TGTTACTTTATT...CATAG|GTC 1 1 37.744
103972372 GT-AG 0 1.000000099473604e-05 1221 rna-XM_017803864.1 19419616 4 7721297 7722517 Lepidothrix coronata 321398 AAA|GTAAGTGGCT...ATGTTCTCATTG/AATGTTCTCATT...GCCAG|GCC 1 1 46.79
103972373 GT-AG 0 1.000000099473604e-05 2047 rna-XM_017803864.1 19419616 5 7718890 7720936 Lepidothrix coronata 321398 AAG|GTAAAAAACT...TTTGTATTATTT/CTTTGTATTATT...TACAG|AAA 1 1 66.89
103972374 GT-AG 0 8.354816108124245e-05 5006 rna-XM_017803864.1 19419616 6 7713746 7718751 Lepidothrix coronata 321398 CCA|GTAAGTACCT...ATCTTCTTAGAC/TATCTTCTTAGA...AACAG|CTC 1 1 74.595
103972375 GT-AG 0 1.000000099473604e-05 5461 rna-XM_017803864.1 19419616 7 7708207 7713667 Lepidothrix coronata 321398 GAG|GTAATTAACT...TGTATTTTATTT/CTGTATTTTATT...TCCAG|TAC 1 1 78.95
103972376 GT-AG 0 1.000000099473604e-05 3620 rna-XM_017803864.1 19419616 8 7704277 7707896 Lepidothrix coronata 321398 CAG|GTGAGTCTGG...GAGACTTCAACA/AAATATCTCATT...TTTAG|ATC 2 1 96.259

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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]);