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 = 34437908

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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
193125216 GC-AG 0 1.000000099473604e-05 173 rna-SMICCKB8_LOCUS80 34437908 1 8794 8966 Symbiodinium sp. kb8 230985 AAG|GCGGGCAGCC...TACACCTTAAAC/TACACCTTCAAC...GACAG|GCT 1 1 11.594
193125217 GC-AG 0 0.0002726940074999 1020 rna-SMICCKB8_LOCUS80 34437908 2 9022 10041 Symbiodinium sp. kb8 230985 CCA|GCTTCTGGGC...AATCTTTTCGCT/GCACATCTGAGC...ACAAG|GTT 2 1 21.558
193125218 GC-AG 0 1.000000099473604e-05 488 rna-SMICCKB8_LOCUS80 34437908 3 10124 10611 Symbiodinium sp. kb8 230985 CAG|GCCTTTTGCC...CTGCCCTTGCAA/GCAGTGTTCAGA...CCAAG|GAC 0 1 36.413
193125219 GC-AG 0 0.0448730737064491 632 rna-SMICCKB8_LOCUS80 34437908 4 10626 11257 Symbiodinium sp. kb8 230985 CGA|GCATCTTGGC...CTGTTCTCACCC/CCTGTTCTCACC...CTCAG|GTA 2 1 38.949
193125220 GC-AG 0 1.000000099473604e-05 443 rna-SMICCKB8_LOCUS80 34437908 5 11315 11757 Symbiodinium sp. kb8 230985 AAG|GCGGGACACA...GTTGCTGTGACA/CTGTGACACACT...GAAAG|GTG 2 1 49.275
193125221 GC-AG 0 0.0006920161407637 763 rna-SMICCKB8_LOCUS80 34437908 6 11805 12567 Symbiodinium sp. kb8 230985 GCA|GCTCCCCGGA...CACCCCTGAAAA/ACACCCCTGAAA...CTGAG|GCT 1 1 57.79
193125222 GT-AG 0 0.0015218137938625 346 rna-SMICCKB8_LOCUS80 34437908 7 12679 13024 Symbiodinium sp. kb8 230985 TGG|GTGGCCTGCC...AAGCCCTAGACC/GCCCTTCTCATG...TTGAG|GTT 1 1 77.899

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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]);