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 = 37957365

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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
209597702 GT-AG 0 1.000000099473604e-05 101 rna-XM_014639832.2 37957365 1 9895360 9895460 Vigna radiata 157791 TGG|GTAAGTCATC...AGTGATTTGATT/AGTGATTTGATT...GGCAG|TGA 2 1 13.631
209597703 GT-AG 0 1.000000099473604e-05 156 rna-XM_014639832.2 37957365 2 9894096 9894251 Vigna radiata 157791 ATG|GTAAGAGTCC...GAATTCTAAATT/TGAATTCTAAAT...GAAAG|GAA 0 1 44.205
209597704 GT-AG 0 2.9726000149236183e-05 103 rna-XM_014639832.2 37957365 3 9893717 9893819 Vigna radiata 157791 CAG|GTATGTAAAA...GACTTGTTATTT/TTGATCTTCAAA...TGCAG|AAT 0 1 51.821
209597705 GT-AG 0 1.000000099473604e-05 94 rna-XM_014639832.2 37957365 4 9892972 9893065 Vigna radiata 157791 CAG|GTGGGTGTGT...TCTTTCTTTTCC/CCCAAACTCACC...CACAG|GCC 0 1 69.785
209597706 GT-AG 0 1.000000099473604e-05 78 rna-XM_014639832.2 37957365 5 9892206 9892283 Vigna radiata 157791 AAG|GTAAAATGCC...TACTCTTTGATC/CTTCTATTCATA...TTCAG|ATG 1 1 88.769
209597707 AT-AG 0 1.000000099473604e-05 918 rna-XM_014639832.2 37957365 6 9890905 9891822 Vigna radiata 157791 CAG|ATTGATCAGA...CTTCCATTAAAG/TTAAAGCTAACA...TGCAG|ACT 0 1 99.338

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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]);