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 = 9129042

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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
49483780 GT-AG 0 1.4498635162902294e-05 63358 rna-XM_012729138.1 9129042 1 72046935 72110292 Condylura cristata 143302 AAG|GTGACTTGGT...CTTCATTTGACA/TGGAGCTTCATT...CACAG|CGG 1 1 4.227
49483781 GT-AG 0 1.000000099473604e-05 18976 rna-XM_012729138.1 9129042 2 72027806 72046781 Condylura cristata 143302 GGG|GTAAGAGTCT...CCCTCCCTGACT/CCCTCCCTGACT...TCCAG|AGT 1 1 7.428
49483782 GT-AG 0 7.917204314230596e-05 14608 rna-XM_012729138.1 9129042 3 72013070 72027677 Condylura cristata 143302 AAG|GTACGTTAGC...ATGTTCTTGCCA/CAGCTATTTACA...TGCAG|TCT 0 1 10.107
49483783 GT-AG 0 3.3763764959514075 10603 rna-XM_012729138.1 9129042 4 72002277 72012879 Condylura cristata 143302 CCG|GTATGCTTTG...GTTTCTTTAACA/CTGATTTTTATT...TCCAG|CAT 1 1 14.082
49483784 GT-AG 0 1.000000099473604e-05 522 rna-XM_012729138.1 9129042 5 71998524 71999045 Condylura cristata 143302 CGC|GTGAGTCTGG...TTGTGTTTGCCT/ATTCAAGTCACT...CATAG|CTG 1 1 81.691
49483785 GT-AG 0 0.7335728280907876 4013 rna-XM_012729138.1 9129042 6 71994378 71998390 Condylura cristata 143302 CAG|GTATCCCCAA...TCCCACTTAATG/TTGTGATTGACA...CCCAG|ATC 2 1 84.474

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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]);