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 = 25340322

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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
139663759 GT-AG 0 1.000000099473604e-05 255786 rna-XM_007947184.1 25340322 1 34755972 35011757 Orycteropus afer 9818 AAG|GTAAGGCGCC...TAGCTTTTAACA/TAGCTTTTAACA...AACAG|GAA 0 1 3.778
139663760 GT-AG 0 1.000000099473604e-05 109272 rna-XM_007947184.1 25340322 2 34646546 34755817 Orycteropus afer 9818 AAG|GTTAGCATAA...GCTATTTTATTT/TTTATTTTCAGA...TTCAG|CTA 1 1 5.225
139663761 GT-AG 0 0.0013683740036211 11515 rna-XM_007947184.1 25340322 3 34634873 34646387 Orycteropus afer 9818 AAT|GTAAGCTGTT...TTCTCTTCAATT/TTTCTCTTCAAT...CTTAG|ATA 0 1 6.71
139663762 GT-AG 0 1.000000099473604e-05 31591 rna-XM_007947184.1 25340322 4 34603144 34634734 Orycteropus afer 9818 CAG|GTAATAATAC...AATATCTTATTT/TCTTTGTTGACT...TTCAG|GAG 0 1 8.007
139663763 GT-AG 0 0.0002276706868723 372 rna-XM_007947184.1 25340322 5 34602661 34603032 Orycteropus afer 9818 ATG|GTAACAACCT...ATTTACTTAACA/CAATTATTTACT...TACAG|ATT 0 1 9.05
139663764 GT-AG 0 1.000000099473604e-05 994 rna-XM_007947184.1 25340322 6 34601591 34602584 Orycteropus afer 9818 CAG|GTAAGAGTCT...GGATTCTTTTCT/AGTTGTATTACA...TGTAG|TCA 1 1 9.764
139663765 GT-AG 0 1.000000099473604e-05 662 rna-XM_007947184.1 25340322 7 34600795 34601456 Orycteropus afer 9818 AAG|GTAAGGCAAT...CCATTTTTATAA/TAAGATTTGATT...TAAAG|ATT 0 1 11.023
139663766 GT-AG 0 1.000000099473604e-05 12153 rna-XM_007947184.1 25340322 8 34579269 34591421 Orycteropus afer 9818 ATG|GTAAATGAGC...GTAATTTTAATT/TTTTATTTTATT...TTTAG|AAA 1 1 99.107

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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]);