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)

8 rows where transcript_id = 6831666

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
35541545 GT-AG 0 1.000000099473604e-05 1049 rna-XM_009702395.1 6831666 2 1947 2995 Cariama cristata 54380 AGG|GTGAGTAACT...CCTGCTTTACTC/TCCTGCTTTACT...TGCAG|CTG 0 1 16.141
35541546 GT-AG 0 0.000123519111474 2645 rna-XM_009702395.1 6831666 3 3182 5826 Cariama cristata 54380 GAG|GTATGTGCTT...GCGTTTTTATTT/TTTTATTTCATT...TCCAG|GGT 0 1 27.644
35541547 GT-AG 0 0.1462957022691706 648 rna-XM_009702395.1 6831666 4 6007 6654 Cariama cristata 54380 CAT|GTATGTTGCA...AAATCTTTGACT/AAATCTTTGACT...AATAG|CAA 0 1 38.776
35541548 GT-AG 0 1.000000099473604e-05 2560 rna-XM_009702395.1 6831666 5 6888 9447 Cariama cristata 54380 CAG|GTGAGAGAAT...TGATCTTTGAAA/TGATCTTTGAAA...CACAG|TGA 2 1 53.185
35541549 GT-AG 0 1.000000099473604e-05 573 rna-XM_009702395.1 6831666 6 9578 10150 Cariama cristata 54380 GAG|GTAAGTGTCA...ATTTACTTACTC/TATTTACTTACT...CTTAG|GGA 0 1 61.224
35541550 GT-AG 0 1.000000099473604e-05 3961 rna-XM_009702395.1 6831666 7 10524 14484 Cariama cristata 54380 TGG|GTGAGTGGAA...GTGTTTTTATAC/AGTGTTTTTATA...CATAG|GAA 1 1 84.292
35541551 GT-AG 0 0.0008604676361845 1255 rna-XM_009702395.1 6831666 8 14564 15818 Cariama cristata 54380 TGG|GTGTTCAGAA...GCTTTCTTAAAC/AGCTGACTCACA...GTAAG|CTA 2 1 89.177
35541554 GT-AG 0 0.0007941533415495 422 rna-XM_009702395.1 6831666 1 1345 1766 Cariama cristata 54380 GAG|GTAACGTCCT...TTGTCCTTCACA/TTGTCCTTCACA...CTCAG|CTG   0 8.349

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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]);