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 = 11121877

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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
61577421 GT-AG 0 9.230611951981708e-05 66 rna-XM_047059840.1 11121877 1 10567446 10567511 Dermatophagoides farinae 6954 GCG|GTAAATATAA...AGATTTTTAACA/TTTTAACTCATC...ACTAG|ATA 1 1 0.793
61577422 GT-AG 0 0.0342852871155177 61 rna-XM_047059840.1 11121877 2 10569875 10569935 Dermatophagoides farinae 6954 AAA|GTATTTACTT...ATTTTTTTAGTT/TTACTTTTTATT...ATTAG|CTT 0 1 16.274
61577423 GT-AG 0 2.11048444741865e-05 54 rna-XM_047059840.1 11121877 4 10570661 10570714 Dermatophagoides farinae 6954 GTA|GTAAGTTGAA...ATATCATTATTT/TATTATATCATT...TATAG|GCT 1 1 21.017
61577424 GT-AG 0 0.0002520093153011 57 rna-XM_047059840.1 11121877 5 10570929 10570985 Dermatophagoides farinae 6954 CAA|GTAAGTTGTT...GTTTTTTTAACG/GTTTTTTTAACG...TTTAG|CGG 2 1 22.419
61577425 GT-AG 0 2.45388368111029e-05 64 rna-XM_047059840.1 11121877 8 10581905 10581968 Dermatophagoides farinae 6954 CTG|GTAATTGTTA...TTTTTTTTATCC/ATTTTTTTTATC...TAAAG|GGT 1 1 93.933
61577426 GT-AG 0 0.0024553036855644 50 rna-XM_047059840.1 11121877 9 10582540 10582589 Dermatophagoides farinae 6954 AAG|GTATGTTTTT...AAATTGTTGAAA/AAAATAATTACC...TTTAG|TGA 2 1 97.674

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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]);