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)

7 rows where transcript_id = 31411909

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
174865813 GT-AG 0 0.0031102134598376 55 rna-NCT539_LOCUS387 31411909 1 2016433 2016487 Rotaria sp. silwood2 2762512 AAG|GTTTATTTTG...ATTTCGTTAACA/ATTTCGTTAACA...TATAG|ATT 1 1 24.337
174865814 GT-AG 0 0.0005562926962398 59 rna-NCT539_LOCUS387 31411909 2 2016362 2016420 Rotaria sp. silwood2 2762512 ACC|GTACGTACCA...TATCTCTGAATA/GAATAATTGATT...TTTAG|TGG 1 1 24.767
174865815 GT-AG 0 1.000000099473604e-05 329 rna-NCT539_LOCUS387 31411909 3 2015980 2016308 Rotaria sp. silwood2 2762512 CAG|GTAAAACTAA...ACTATCATGAAT/CATACTATCATG...TAAAG|TTG 0 1 26.667
174865816 GT-AG 0 1.000000099473604e-05 67 rna-NCT539_LOCUS387 31411909 4 2015222 2015288 Rotaria sp. silwood2 2762512 AAG|GTAAGGAACA...TATTTTTTAGAA/TTTTCTTTTATA...TCTAG|ATC 1 1 51.434
174865817 GT-AG 0 0.0001453278196916 49 rna-NCT539_LOCUS387 31411909 5 2015060 2015108 Rotaria sp. silwood2 2762512 CAG|GTAGCATCTT...TTGTTTTCAAAT/GTTGTTTTCAAA...TATAG|GTA 0 1 55.484
174865818 GT-AG 0 1.000000099473604e-05 60 rna-NCT539_LOCUS387 31411909 6 2014213 2014272 Rotaria sp. silwood2 2762512 AAG|GTTAGTGTTT...TTTTTCTAAAAT/TTTTTTCTAAAA...TTTAG|ATT 1 1 83.692
174865819 GT-AG 0 0.0004502945992717 57 rna-NCT539_LOCUS387 31411909 7 2014144 2014200 Rotaria sp. silwood2 2762512 AAG|GTATGTTTGA...CGTATTTTGTTC/ATTTTGTTCAAG...CATAG|GTG 1 1 84.122

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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]);