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 = 8933523

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Suggested facets: dinucleotide_pair, score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
48130631 GT-AG 0 0.0002076239161649 149 rna-XM_027316041.1 8933523 1 36713346 36713494 Coffea eugenioides 49369 AAG|GTATATATAC...GCTCTTCTGATG/GCTCTTCTGATG...TGCAG|CCC 1 1 6.961
48130632 GT-AG 0 1.000000099473604e-05 116 rna-XM_027316041.1 8933523 2 36712858 36712973 Coffea eugenioides 49369 CAG|GTATTGCAGT...CCATCTATATCT/ATATGCATAACA...TACAG|CTT 1 1 14.075
48130633 GT-AG 0 0.0001008179261418 208 rna-XM_027316041.1 8933523 3 36712416 36712623 Coffea eugenioides 49369 CAG|GTATTACTTG...TGTTCCTTCTAA/TTCCTTCTAAAA...GCCAG|GCA 1 1 18.55
48130634 GT-AG 0 0.0008321442240387 116 rna-XM_027316041.1 8933523 4 36712198 36712313 Coffea eugenioides 49369 CAG|GTTGCCCTTT...TATAGCTTAAAT/TATAGCTTAAAT...TGCAG|GGA 1 1 20.501
48130635 GT-AG 0 1.000000099473604e-05 90 rna-XM_027316041.1 8933523 5 36711443 36711532 Coffea eugenioides 49369 TCA|GTCGATAGGT...CTTGTTATGATC/ATATTGCTCACA...TGCAG|TAT 0 1 33.219
48130636 GC-AG 0 1.000000099473604e-05 91 rna-XM_027316041.1 8933523 6 36711195 36711285 Coffea eugenioides 49369 GAG|GCAAGTACAT...ATTTTTTTCATT/ATTTTTTTCATT...TATAG|CTG 1 1 36.221
48130637 GT-AG 0 1.000000099473604e-05 94 rna-XM_027316041.1 8933523 7 36708475 36708568 Coffea eugenioides 49369 CAG|GTTAAAGAAT...TATACTTCAATA/TATATTCTCACT...AACAG|GTT 2 1 86.441

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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]);