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 = 34437874

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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
193124633 GC-AG 0 1.000000099473604e-05 8600 rna-SMICCKB8_LOCUS40 34437874 1 7357 15956 Symbiodinium sp. kb8 230985 CAT|GCCGGGGAGC...CCTGCTTTCACA/CCTGCTTTCACA...CTGAG|GCC 0 1 4.348
193124634 GT-AG 0 6.499031404586267e-05 320 rna-SMICCKB8_LOCUS40 34437874 2 7011 7330 Symbiodinium sp. kb8 230985 GCT|GTGGCAGTCC...CAGCCCTCGACA/TAGGGTCTAATC...CTAAG|GTT 2 1 11.884
193124635 GT-AG 0 1.000000099473604e-05 282 rna-SMICCKB8_LOCUS40 34437874 3 6690 6971 Symbiodinium sp. kb8 230985 TTC|GTCGCGCACT...CAACCTGTAAGG/AGACTTCCAACC...GCGAG|GTC 2 1 23.188
193124636 GC-AG 0 1.000000099473604e-05 744 rna-SMICCKB8_LOCUS40 34437874 4 5900 6643 Symbiodinium sp. kb8 230985 GAG|GCGATCCGAA...CGTGTTATAGTA/TAACGTGTTATA...GCCAG|GTT 0 1 36.522
193124637 GC-AG 0 1.000000099473604e-05 696 rna-SMICCKB8_LOCUS40 34437874 5 5154 5849 Symbiodinium sp. kb8 230985 TGG|GCCACTGGCT...AAGCCCTAAGCT/TAAACCCTAAAA...CTAAG|GGA 2 1 51.014
193124638 GC-AG 0 1.000000099473604e-05 688 rna-SMICCKB8_LOCUS40 34437874 6 4427 5114 Symbiodinium sp. kb8 230985 TTT|GCGGCGGCCT...TGCATTTCGACT/TGCATTTCGACT...CCGAG|GCT 2 1 62.319
193124639 GC-AG 0 1.000000099473604e-05 920 rna-SMICCKB8_LOCUS40 34437874 7 3482 4401 Symbiodinium sp. kb8 230985 CAG|GCAGCTCCGG...GTGGCTATAAAG/CGTGGACTAACT...ATCAG|GAC 0 1 69.565
193124640 GC-AG 0 1.000000099473604e-05 3101 rna-SMICCKB8_LOCUS40 34437874 8 324 3424 Symbiodinium sp. kb8 230985 AAG|GCAGGTGCCG...TCCCCCTCAAAG/CCAAAGCTAAAC...GAAAG|GCT 0 1 86.087

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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]);