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 = 25571529

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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
141263470 GT-AG 0 1.000000099473604e-05 1158 rna-XM_003780784.2 25571529 1 6163276 6164433 Otolemur garnettii 30611 GAG|GTGAGGCCGG...TTTGTTTTGCAT/TTGTTTTGCATT...TCAAG|GCC 2 1 58.199
141263471 GT-AG 0 0.0009081480785145 37152 rna-XM_003780784.2 25571529 2 6125972 6163123 Otolemur garnettii 30611 AAG|GTAGGCTTCT...TGGTCCTTAGAT/TTGCAATTAACT...TTTAG|GAC 1 1 63.653
141263472 GT-AG 0 0.0001280014532103 26993 rna-XM_003780784.2 25571529 3 6098862 6125854 Otolemur garnettii 30611 GAG|GTAACGCTGA...GGAGTCTTAGTT/TATATATTTATA...TATAG|GTC 1 1 67.851
141263473 GT-AG 0 1.000000099473604e-05 9518 rna-XM_003780784.2 25571529 4 6089038 6098555 Otolemur garnettii 30611 CAG|GTAATAATAA...ATATTTTTAGTA/AATATTTTTAGT...CACAG|GTT 1 1 78.83
141263474 GT-AG 0 9.99236185838075e-05 1460 rna-XM_003780784.2 25571529 5 6087433 6088892 Otolemur garnettii 30611 TGA|GTAAGTAGTA...GTTTTCTTTCCT/ACGGTTTTCTTT...CCAAG|ACA 2 1 84.033
141263475 GT-AG 0 1.000000099473604e-05 6692 rna-XM_003780784.2 25571529 6 6080610 6087301 Otolemur garnettii 30611 CAA|GTGAGTGGAT...ATCTTTTTAAAC/ATCTTTTTAAAC...TACAG|TTC 1 1 88.733
141263476 GT-AG 0 0.0002020992741121 2918 rna-XM_003780784.2 25571529 7 6077534 6080451 Otolemur garnettii 30611 GAT|GTAAGTATTT...AGTTTTTTACCT/AAGTTTTTTACC...AACAG|CTT 0 1 94.403

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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]);