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 = 17327623

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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
92592788 GT-AG 0 0.0010661411132262 81 rna-XM_020571703.1 17327623 2 1595179 1595259 Heterostelium album 2086695 AAA|GTATTTAAAC...AAATTCGTAAAT/TCGTAAATTACA...TTAAG|TAG 1 1 27.8
92592789 GT-AG 0 0.031443569221716 49 rna-XM_020571703.1 17327623 3 1595297 1595345 Heterostelium album 2086695 ACT|GTATTTACTT...TTATTATTATTA/ATTATTATTATT...TATAG|ATT 2 1 28.424
92592790 GT-AG 0 0.2051710949642346 73 rna-XM_020571703.1 17327623 4 1595476 1595548 Heterostelium album 2086695 AAA|GTATGTTATT...CACACTTTAACT/TCAATGCTAACA...CTCAG|TTA 0 1 30.617
92592791 GT-AG 0 0.0013980507586585 71 rna-XM_020571703.1 17327623 5 1595736 1595806 Heterostelium album 2086695 TAA|GTAAGCTTTA...TATATATTAATA/TATATATTAATA...AATAG|GGA 1 1 33.772
92592792 GT-AG 0 0.0180647911053009 62 rna-XM_020571703.1 17327623 6 1599149 1599210 Heterostelium album 2086695 ATA|GTAAGTTTTA...TTTTCTTTAACA/TCTAATCTAACT...AATAG|ATA 1 1 90.148
92592793 GT-AG 0 1.000000099473604e-05 65 rna-XM_020571703.1 17327623 7 1599359 1599423 Heterostelium album 2086695 AAA|GTAAGATGAT...TTGTCATTAATT/TATTTTGTCATT...TTTAG|GAA 2 1 92.645
92592794 GT-AG 0 9.998602259061978e-05 75 rna-XM_020571703.1 17327623 8 1599524 1599598 Heterostelium album 2086695 AAT|GTAAGTTGGT...TTTTTTTTATCA/TTTTTTTTTATC...TTTAG|GAT 0 1 94.332

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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]);