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 = 12720276

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Suggested facets: dinucleotide_pair, score

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
67622472 GT-AG 0 1.000000099473604e-05 734 rna-XM_009898583.1 12720276 1 90037 90770 Dryobates pubescens 118200 CAG|GTGCTGTGCT...GATGTTTGGGTT/TGAAGGGTCAAT...TACAG|AGG 1 1 3.704
67622473 GT-AG 0 1.000000099473604e-05 9914 rna-XM_009898583.1 12720276 2 90882 100795 Dryobates pubescens 118200 GAG|GTAAAGTGAA...TGTTTCTTTCCC/GCATTTTCCACT...TGCAG|ATG 1 1 13.981
67622474 GT-AG 0 1.000000099473604e-05 526 rna-XM_009898583.1 12720276 3 101057 101582 Dryobates pubescens 118200 CTG|GTAAGGAGAT...CTCCTCTTGTCT/GAGCCTCTGACT...TGAAG|GTG 1 1 38.148
67622475 GT-AG 0 1.000000099473604e-05 343 rna-XM_009898583.1 12720276 4 101751 102093 Dryobates pubescens 118200 CTG|GTAAGTGGCT...TGTCTCTCAGCA/TTGTCTCTCAGC...CCCAG|TGG 1 1 53.704
67622476 GT-AG 0 1.000000099473604e-05 5640 rna-XM_009898583.1 12720276 5 102211 107850 Dryobates pubescens 118200 CTG|GTGAGTCCCT...TTCCCCTTTCTT/TTCTTTTCCACC...CCCAG|CCA 1 1 64.537
67622477 GT-AG 0 1.000000099473604e-05 4236 rna-XM_009898583.1 12720276 6 107968 112203 Dryobates pubescens 118200 TTG|GTAAGAACAA...CTCTCCCTCCCT/TCTCCTCCCACC...TGCAG|GTG 1 1 75.37
67622478 GC-AG 0 0.0474569923142145 3894 rna-XM_009898583.1 12720276 7 112420 116313 Dryobates pubescens 118200 CCC|GCGCCCACGG...AGCCCCTTGGCA/CACCCCCTGAGC...TGCAG|CAC 1 1 95.37

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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]);