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 = 11363995

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
62711728 GT-AG 0 3.542348510345788e-05 151 rna-GPM918_LOCUS75 11363995 1 85450 85600 Didymodactylos carnosus 1234261 CTA|GTAAGTATTG...CTCTCATTATTT/TTGTTATTCATC...TTTAG|ATA 1 1 35.335
62711729 GT-AG 0 0.0005600274204147 481 rna-GPM918_LOCUS75 11363995 2 84867 85347 Didymodactylos carnosus 1234261 AAG|GTATTGAATA...TAATCCTTATTT/TGTAATTTCACT...TTTAG|ATA 1 1 41.714
62711730 GT-AG 0 0.0001979540703358 62 rna-GPM918_LOCUS75 11363995 3 84771 84832 Didymodactylos carnosus 1234261 GCA|GTAAGTCTCT...GTTTATTTAACA/GTTTATTTAACA...TGTAG|ATG 2 1 43.84
62711731 GT-AG 0 0.0002275086449431 66 rna-GPM918_LOCUS75 11363995 4 84658 84723 Didymodactylos carnosus 1234261 ATG|GTAAGCCTGT...CTTTTTTTGACT/CTTTTTTTGACT...TTCAG|ATC 1 1 46.779
62711732 GT-AG 0 1.000000099473604e-05 924 rna-GPM918_LOCUS75 11363995 5 83710 84633 Didymodactylos carnosus 1234261 AAG|GTAAAACAAT...TTTTTTTTAGAG/AAGTTTTTCACG...TTCAG|ATG 1 1 48.28
62711733 GT-AG 0 1.000000099473604e-05 322 rna-GPM918_LOCUS75 11363995 6 83332 83653 Didymodactylos carnosus 1234261 AAG|GTAGTTAACA...GAATTTATGACT/TTCATGTTTATT...TTCAG|GCA 0 1 51.782

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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]);