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 = 6787033

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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
35251541 GT-AG 0 1.000000099473604e-05 35311 rna-XM_041199190.1 6787033 1 116362418 116397728 Carcharodon carcharias 13397 TAG|GTAAGGATGG...GGCACTTTATTG/TAACGTTTTATT...TACAG|GGT 1 1 1.582
35251542 GT-AG 0 1.000000099473604e-05 15547 rna-XM_041199190.1 6787033 2 116346805 116362351 Carcharodon carcharias 13397 ATG|GTAAAATGCT...TTGCACTTATTT/TTTGCACTTATT...TGAAG|ACT 1 1 2.658
35251543 GT-AG 0 1.000000099473604e-05 6270 rna-XM_041199190.1 6787033 3 116340455 116346724 Carcharodon carcharias 13397 AAG|GTAAGTCCAA...AATTCATTACTT/ATTTGGTTTACT...TCTAG|GAC 0 1 3.963
35251544 GT-AG 0 0.0016668481413952 4668 rna-XM_041199190.1 6787033 4 116335654 116340321 Carcharodon carcharias 13397 AAG|GTATAATTCT...TTTCCATTAATG/TTAGTATTTATT...TTTAG|ACC 1 1 6.132
35251545 GT-AG 0 1.2314897985811443e-05 8482 rna-XM_041199190.1 6787033 5 116326920 116335401 Carcharodon carcharias 13397 AAG|GTAATCAAAT...TTGCCTTTAAAG/CTTTTGTTAAGG...GTTAG|CAG 1 1 10.241
35251546 GT-AG 0 1.794357542557404e-05 37605 rna-XM_041199190.1 6787033 6 116289218 116326822 Carcharodon carcharias 13397 AGG|GTAAGTATTA...TTTATTTTATTT/GTTTTATTTATT...TACAG|TTA 2 1 11.823
35251547 GT-AG 0 1.000000099473604e-05 21941 rna-XM_041199190.1 6787033 7 116261884 116283824 Carcharodon carcharias 13397 TAG|GTAAGATTAA...TTTTTTTTAATT/TTTTTTTTAATT...TATAG|GAA 1 1 99.772

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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]);