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 = 529149

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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
2994443 GT-AG 0 1.000000099473604e-05 206 rna-XM_031704928.1 529149 1 955991 956196 Actinia tenebrosa 6105 ATG|GTAAGTGCAA...ACTATTTTGATG/ACTATTTTGATG...TTTAG|GCC 0 1 0.412
2994444 GT-AG 0 1.000000099473604e-05 577 rna-XM_031704928.1 529149 2 955333 955909 Actinia tenebrosa 6105 AAT|GTAAGTACAA...TTTGTTTTATTT/TTCTTTCTAATT...TTCAG|ACG 0 1 11.523
2994445 GT-AG 0 1.000000099473604e-05 344 rna-XM_031704928.1 529149 3 954894 955237 Actinia tenebrosa 6105 GGG|GTTAGTACCT...GCTACTTTATCT/CTTGTATTAAAA...TACAG|ATA 2 1 24.554
2994446 GT-AG 0 3.9100978078635466e-05 784 rna-XM_031704928.1 529149 4 954055 954838 Actinia tenebrosa 6105 TGT|GTAAGTGTTT...CTATTTTTATTG/TCTATTTTTATT...TTCAG|GGT 0 1 32.099
2994447 GT-AG 0 2.1969276106438083e-05 132 rna-XM_031704928.1 529149 5 953835 953966 Actinia tenebrosa 6105 TTG|GTAAGTTTAC...TTGTCTTTCATT/TTGTCTTTCATT...TGTAG|TTC 1 1 44.17
2994448 GT-AG 0 1.000000099473604e-05 146 rna-XM_031704928.1 529149 6 953636 953781 Actinia tenebrosa 6105 CAG|GTTTGTAGTC...ACTGCTTTACTA/GCTTTACTAAAT...TCTAG|TAT 0 1 51.44
2994449 GT-AG 0 1.000000099473604e-05 114 rna-XM_031704928.1 529149 8 952722 952835 Actinia tenebrosa 6105 AAG|GTAATGATTC...ATAGCTTTCATT/CTTTCATTCATT...TACAG|CTC 1 1 89.026

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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]);