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)

5 rows where transcript_id = 26649224

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Suggested facets: phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
147771568 GT-AG 0 3.102960828554311e-05 167 PHUM601880-RA 26649224 1 393321 393487 Pediculus humanus 121224 TGC|GTAGGTACCC...TTATTATTATTT/TTATTATTTATT...AGTAG|GAC 1 1 0.739
147771569 GT-AG 0 1.000000099473604e-05 335 PHUM601880-RA 26649224 2 392730 393064 Pediculus humanus 121224 ACG|GTTTGTTAAT...GAAATTTGAGTT/ATCATCATCACC...GTTAG|GTC 2 1 12.558
147771570 GT-AG 0 5.6235745132585136e-05 120 PHUM601880-RA 26649224 3 392375 392494 Pediculus humanus 121224 CAG|GTTTTCCTAT...CAAATATTATTT/CTAACACTAACT...TAAAG|GTT 0 1 23.407
147771571 GT-AG 0 0.0001148662822664 90 PHUM601880-RA 26649224 4 391943 392032 Pediculus humanus 121224 TTG|GTAAATCTTT...ATTCCGTTAATT/ATTATTATTATT...AAAAG|CAA 0 1 39.197
147771572 GT-AG 0 0.0003249041165727 91 PHUM601880-RA 26649224 5 390551 390641 Pediculus humanus 121224 CGA|GTAAATTTAA...ATTTCTTTTTCT/CATTTGTTCAAA...CTCAG|GGA 2 1 99.261

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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]);