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 = 34091256

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Suggested facets: dinucleotide_pair, 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
190849613 GT-AG 0 1.000000099473604e-05 79 rna-XM_013251433.1 34091256 2 1612961 1613039 Stomoxys calcitrans 35570 TAC|GTGAGTATAT...TGTTTGTTACCG/TTGTTTGTTACC...TGCAG|AAA 2 1 9.528
190849614 GT-AG 0 8.559175316939659e-05 2681 rna-XM_013251433.1 34091256 3 1609593 1612273 Stomoxys calcitrans 35570 AAG|GTATGAATAT...CTGTTCTTATTT/TCTGTTCTTATT...TTCAG|CTC 2 1 38.491
190849615 GC-AG 0 1.000000099473604e-05 70 rna-XM_013251433.1 34091256 4 1608907 1608976 Stomoxys calcitrans 35570 AAG|GCAAGTGGTT...TTCTCATTATCA/TATGTTCTCATT...TTCAG|CAA 0 1 64.46
190849616 GT-AG 0 0.0027561636940615 83 rna-XM_013251433.1 34091256 5 1608706 1608788 Stomoxys calcitrans 35570 TGG|GTAAGCCTTC...TTTTCTTTAACC/TTTTCTTTAACC...CTCAG|GCA 1 1 69.435
190849617 GT-AG 0 0.0010443063570428 73 rna-XM_013251433.1 34091256 6 1608523 1608595 Stomoxys calcitrans 35570 TCT|GTAAGTTATC...TCTCTTTTATTT/TTCTCTTTTATT...CATAG|TTT 0 1 74.073
190849618 GT-AG 0 1.000000099473604e-05 72 rna-XM_013251433.1 34091256 7 1608082 1608153 Stomoxys calcitrans 35570 GAG|GTAAGTGAAA...AAAAACTTAACT/TAACTTTTCATA...TCCAG|GTT 0 1 89.629
190849619 GT-AG 0 1.3187008969601276e-05 1070 rna-XM_013251433.1 34091256 8 1606898 1607967 Stomoxys calcitrans 35570 GAG|GTAAATAATT...TTGTTTTTGATT/TTGTTTTTGATT...TCCAG|ATA 0 1 94.435
190849789 GT-AG 0 1.000000099473604e-05 229 rna-XM_013251433.1 34091256 1 1613178 1613406 Stomoxys calcitrans 35570 AAG|GTAATTTATT...TTGTTCATAATT/CATTTGTTCATA...TGCAG|GAC   0 4.511

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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]);