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 = 17645914

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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
94520817 GT-AG 0 1.000000099473604e-05 236748 rna-XM_046833337.1 17645914 1 160307527 160544274 Homalodisca vitripennis 197043 AAG|GTAAGACAGG...ATTATTTTAATA/TTAATATTAATT...TCCAG|GTC 1 1 1.245
94520818 GT-AG 0 0.0006438178340923 3037 rna-XM_046833337.1 17645914 2 160301174 160304210 Homalodisca vitripennis 197043 AAG|GTAGATTTGT...TGCTCTTTGACA/GTTAGGCTTACT...CCTAG|AGC 2 1 76.336
94520819 GT-AG 0 1.000000099473604e-05 2239 rna-XM_046833337.1 17645914 3 160298634 160300872 Homalodisca vitripennis 197043 CAG|GTCAGTACAG...CATATTTTGACT/CATATTTTGACT...TTTAG|CTC 0 1 83.152
94520820 GT-AG 0 0.0013643822046808 1584 rna-XM_046833337.1 17645914 4 160296979 160298562 Homalodisca vitripennis 197043 CAG|GTATGCCATT...GATATTTTATAC/CGATATTTTATA...TATAG|CGA 2 1 84.76
94520821 GT-AG 0 1.000000099473604e-05 136 rna-XM_046833337.1 17645914 5 160296628 160296763 Homalodisca vitripennis 197043 TGG|GTAAGTAGAC...TTTGGCATATTA/ATTTGGCATATT...TCCAG|TTC 1 1 89.629
94520822 GT-AG 0 1.000000099473604e-05 1635 rna-XM_046833337.1 17645914 6 160294862 160296496 Homalodisca vitripennis 197043 GTG|GTTAGTAGGC...ATGTTGTTAACC/ATGTTGTTAACC...TGCAG|CTG 0 1 92.595
94520823 GT-AG 0 1.000000099473604e-05 1069 rna-XM_046833337.1 17645914 7 160293631 160294699 Homalodisca vitripennis 197043 AAG|GTTTGTACAT...ATTGTCTTACAT/CATTGTCTTACA...TGCAG|AGA 0 1 96.264

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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]);