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)

8 rows where transcript_id = 20642355

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
110537114 GT-AG 0 1.000000099473604e-05 119 rna-XM_008351399.3 20642355 3 18282525 18282643 Malus domestica 3750 GAG|GTGAGAAGAT...GGTTATTTGACT/GGTTATTTGACT...GACAG|TTG 0 1 47.368
110537115 GT-AG 0 0.0238885741594722 188 rna-XM_008351399.3 20642355 4 18282179 18282366 Malus domestica 3750 TAG|GTATCACCAT...AAGTTCTTATTG/TTATGTTTAATT...TGCAG|AGA 2 1 52.318
110537116 GT-AG 0 1.6763182598754753e-05 154 rna-XM_008351399.3 20642355 5 18281220 18281373 Malus domestica 3750 CAG|GTGTGTATTT...GTTCTCTTTACG/GCCGTATTCATT...TTCAG|ATG 0 1 77.538
110537117 GT-AG 0 0.0343461712040351 102 rna-XM_008351399.3 20642355 6 18280971 18281072 Malus domestica 3750 GAG|GTATGCTCTC...ATCTTCATGACC/AAAGTTTTCATC...TGCAG|AAA 0 1 82.143
110537118 GT-AG 0 1.000000099473604e-05 94 rna-XM_008351399.3 20642355 7 18280559 18280652 Malus domestica 3750 AAG|GTTGGCTAAT...TTATCTATAGTT/ATAGTTCTAACT...TTCAG|AAT 0 1 92.105
110537119 GT-AG 0 0.0001482203343614 277 rna-XM_008351399.3 20642355 8 18280222 18280498 Malus domestica 3750 GAG|GTATGAATTT...CCGATTTTAACT/TTTTAACTAATT...GACAG|GTT 0 1 93.985
110542869 GT-AG 0 6.768827216301003e-05 235 rna-XM_008351399.3 20642355 1 18284516 18284750 Malus domestica 3750 AAG|GTACCACAAG...CTGTTCTGAGCT/AAGTTTTTTATG...TGCAG|GGG   0 3.947
110542870 GT-AG 0 1.000000099473604e-05 441 rna-XM_008351399.3 20642355 2 18284015 18284455 Malus domestica 3750 ATG|GTAATGCCTT...TGATCCTTATCA/CATTGATTCATT...AGTAG|GCC   0 5.827

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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]);