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 = 8933591

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
48131417 GT-AG 0 2.3524684805347493e-05 212 rna-XM_027319518.1 8933591 1 53102697 53102908 Coffea eugenioides 49369 CAG|GTAATCAAAC...ATATTTTTATCT/AATATTTTTATC...TGCAG|TTG 1 1 4.601
48131418 GT-AG 0 1.000000099473604e-05 134 rna-XM_027319518.1 8933591 2 53102432 53102565 Coffea eugenioides 49369 AAA|GTGAGAACTC...TTTTTTTTGACT/TTTTTTTTGACT...TGCAG|GTT 0 1 8.298
48131419 GT-AG 0 0.0412540196704834 81 rna-XM_027319518.1 8933591 3 53102078 53102158 Coffea eugenioides 49369 CAG|GTATCACTAT...GGTATCTTATCC/TGGTATCTTATC...TGCAG|TCA 0 1 16.003
48131420 GT-AG 0 1.000000099473604e-05 126 rna-XM_027319518.1 8933591 4 53099425 53099550 Coffea eugenioides 49369 GAG|GTACAATGTT...AGAATTTTTGTG/AATCAATTCAAG...TGAAG|GAG 1 1 87.327
48131421 GT-AG 0 4.502760782223031e-05 113 rna-XM_027319518.1 8933591 5 53099137 53099249 Coffea eugenioides 49369 AAT|GTAAGTTGCA...TATTTCTCAATC/CTATTTCTCAAT...TGCAG|TGG 2 1 92.266
48131422 GT-AG 0 1.000000099473604e-05 586 rna-XM_027319518.1 8933591 6 53098436 53099021 Coffea eugenioides 49369 GAG|GTAAATTACT...TTAGGCTTATAA/TATGAGTTCACA...TACAG|GAA 0 1 95.512
48131423 GT-AG 0 0.0002893339655273 1071 rna-XM_027319518.1 8933591 7 53097284 53098354 Coffea eugenioides 49369 CCG|GTATGTCACC...ATTTCATTACCA/ACCAATTTCATT...TTCAG|GTC 0 1 97.798

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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]);