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 = 27150989

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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
151208838 GT-AG 0 0.0025289912499004 3233 rna-XM_020715694.1 27150989 1 588964 592196 Phalaenopsis equestris 78828 TAG|GTTTATTCTT...GTATTTTTAATT/GTATTTTTAATT...GGCAG|CAA 2 1 16.312
151208839 GT-AG 0 1.000000099473604e-05 340 rna-XM_020715694.1 27150989 2 592291 592630 Phalaenopsis equestris 78828 AAG|GTTTGGAAAC...GCATATTTGACT/ATTTGACTGATA...TTTAG|GGT 0 1 25.836
151208840 GT-AG 0 0.0001064285307263 669 rna-XM_020715694.1 27150989 3 592682 593350 Phalaenopsis equestris 78828 GAT|GTAAGTCTAC...ATATCCTTAAAG/TTTAAATTGATA...TATAG|GCT 0 1 31.003
151208841 GT-AG 0 1.000000099473604e-05 1187 rna-XM_020715694.1 27150989 4 593525 594711 Phalaenopsis equestris 78828 CTG|GTGAGCTGGG...GAAATTTAAGTT/TTAAAGCTGATT...TGTAG|GAT 0 1 48.632
151208842 GT-AG 0 3.42530327855442e-05 402 rna-XM_020715694.1 27150989 5 594889 595290 Phalaenopsis equestris 78828 AAG|GTATTTGAGC...TATATTTTCTCT/TCTATATATATT...TGCAG|GCA 0 1 66.565
151208843 GT-AG 0 3.4423884391391825e-05 514 rna-XM_020715694.1 27150989 6 595411 595924 Phalaenopsis equestris 78828 CAG|GTTTGTTCTT...TAAGATTTAATT/ATTTAATTCATG...TGCAG|GTA 0 1 78.723
151208844 GT-AG 0 0.0016306638145673 3931 rna-XM_020715694.1 27150989 7 596059 599989 Phalaenopsis equestris 78828 CAG|GTAGATTTTT...TTGGTCTTAATT/TGCTTTTTTATT...CCCAG|GGA 2 1 92.3

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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]);