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)

6 rows where transcript_id = 6439379

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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
33380576 GT-AG 0 1.000000099473604e-05 107 rna-XM_030632431.1 6439379 1 64201403 64201509 Cannabis sativa 3483 ATG|GTAAGTATAT...AGAGTTTTGATA/TGAGTTTTTACT...TGTAG|CAA 2 1 0.998
33380577 GT-AG 0 0.0036433335705301 604 rna-XM_030632431.1 6439379 2 64200666 64201269 Cannabis sativa 3483 CGG|GTATATCTCT...GATAACTTAATT/AAATTTTTTATG...TTCAG|GTT 0 1 4.492
33380578 GT-AG 0 0.0009792699240536 151 rna-XM_030632431.1 6439379 3 64200411 64200561 Cannabis sativa 3483 AAA|GTATGTACAT...TTGTGCTTATTT/ATTGTGCTTATT...TTTAG|AAA 2 1 7.224
33380579 GT-AG 0 1.000000099473604e-05 134 rna-XM_030632431.1 6439379 4 64200105 64200238 Cannabis sativa 3483 GTG|GTCAGTACAT...ATTATTTTCATG/ATTATTTTCATG...AACAG|TTA 0 1 11.742
33380580 GT-AG 0 1.8496639688326544e-05 137 rna-XM_030632431.1 6439379 5 64199827 64199963 Cannabis sativa 3483 TTG|GTAAGATTAA...TACTTCTTGATA/TTTAACCTCATT...AGCAG|AAT 0 1 15.445
33380581 GT-AG 0 1.000000099473604e-05 141 rna-XM_030632431.1 6439379 6 64199430 64199570 Cannabis sativa 3483 CAG|GTATGAAAAC...GCTGCTTTATCT/TTGTTTCTTACA...TGCAG|GCC 1 1 22.17

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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]);