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 = 34437925

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
193125535 GA-AG 0 0.0001143853711743 212 rna-SMICCKB8_LOCUS100 34437925 1 19385 19596 Symbiodinium sp. kb8 230985 AAT|GATCCGCAGC...GGTTTCTTCGTT/TGATAGCTGACT...ATAAG|GCA 0 1 38.094
193125536 GA-AG 0 0.0002577911801535 127 rna-SMICCKB8_LOCUS100 34437925 2 18823 18949 Symbiodinium sp. kb8 230985 CAG|GACCCATAGT...GGACCCTTCACA/TTGCTTCCCACA...TTCAG|GAC 0 1 53.624
193125537 GT-AG 0 0.0005042524798452 87 rna-SMICCKB8_LOCUS100 34437925 3 18333 18419 Symbiodinium sp. kb8 230985 CAT|GTTACTGTTT...GATGCCTTGCCA/AATGAGTTCAGA...CGAAG|GCT 1 1 68.011
193125538 GA-AG 0 1.000000099473604e-05 264 rna-SMICCKB8_LOCUS100 34437925 4 17539 17802 Symbiodinium sp. kb8 230985 ATG|GATCGGAGAA...AGTGCCTTGAGC/ACGATAATCAAT...GTCAG|GAC 0 1 86.933
193125539 GA-AG 0 0.1235183977648345 186 rna-SMICCKB8_LOCUS100 34437925 5 17278 17463 Symbiodinium sp. kb8 230985 TGG|GAATCTGGTC...CTCCCTGTAAAC/GCGTGCTTCAAA...CCCAG|GTC 0 1 89.611
193125540 GC-AG 0 1.000000099473604e-05 48 rna-SMICCKB8_LOCUS100 34437925 6 17214 17261 Symbiodinium sp. kb8 230985 GAG|GCCTTTTGAT...CAAGCCGAAGAA/CGAAGAAGGACA...AGGAG|GCG 1 1 90.182
193125541 GC-AG 0 1.000000099473604e-05 58 rna-SMICCKB8_LOCUS100 34437925 7 17069 17126 Symbiodinium sp. kb8 230985 CCG|GCGTGGTAGT...CTACTGCTAGTG/TAGTGGCAGACC...CCAAG|GCA 1 1 93.288

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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]);