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 = 22173105

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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
120103159 GT-AG 0 0.0001087848135813 17192 rna-XM_036388354.1 22173105 1 80521137 80538328 Molothrus ater 84834 CAG|GTACCGGCTT...TTTTTTTTTTCC/TTATATCTAAAA...TTTAG|CAA 2 1 1.991
120103160 GT-AG 0 1.000000099473604e-05 4100 rna-XM_036388354.1 22173105 2 80538487 80542586 Molothrus ater 84834 CCA|GTGAGTTACA...TACATTTTGAAA/TACATTTTGAAA...TCTAG|TTA 1 1 4.635
120103161 GT-AG 0 0.0026199764489683 102 rna-XM_036388354.1 22173105 3 80542659 80542760 Molothrus ater 84834 AAG|GTAACCAAAA...TACTTTTTATCA/CTACTTTTTATC...TTTAG|ATC 1 1 5.84
120103162 GT-AG 0 1.000000099473604e-05 4634 rna-XM_036388354.1 22173105 4 80542906 80547539 Molothrus ater 84834 ACG|GTGAGCTATA...AGTTCCTTTTCA/TTCCTTTTCAAA...TACAG|ATA 2 1 8.266
120103163 GT-AG 0 1.000000099473604e-05 1538 rna-XM_036388354.1 22173105 5 80547589 80549126 Molothrus ater 84834 ACG|GTAAGTAGTT...GTTACTTTACAA/GGTTACTTTACA...AACAG|GCT 0 1 9.086
120103164 GT-AG 0 1.000000099473604e-05 1588 rna-XM_036388354.1 22173105 6 80549254 80550841 Molothrus ater 84834 GTG|GTAAGTGTGT...TTTTTCTTTTCC/AGATTATTAAAG...TGCAG|TTT 1 1 11.212

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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]);