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 = 23617050

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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
128510270 GT-AG 0 1.6968604969438705e-05 844 rna-XM_019372734.1 23617050 1 17372298 17373141 Nicotiana attenuata 49451 CAG|GTTGTCTTGA...TTCTTCTAATCA/TTTCTTCTAATC...TCCAG|GTT 0 1 5.642
128510271 GT-AG 0 3.0642591328189304e-05 2030 rna-XM_019372734.1 23617050 2 17370079 17372108 Nicotiana attenuata 49451 GAA|GTAAGCCCTT...TGTTCTCTATTT/TCTGTTTTCAAT...TGCAG|GTG 0 1 10.319
128510272 GT-AG 0 1.000000099473604e-05 163 rna-XM_019372734.1 23617050 3 17369823 17369985 Nicotiana attenuata 49451 GAG|GTGTGTAGTT...AACTCTTTACTG/TTGTTTGTTATT...TGTAG|GTT 0 1 12.621
128510273 GT-AG 0 1.000000099473604e-05 82 rna-XM_019372734.1 23617050 4 17369558 17369639 Nicotiana attenuata 49451 GAG|GTGACTGATT...TGCTCTTTAATG/TTTTGTTTTACG...CTCAG|GTC 0 1 17.149
128510274 GT-AG 0 1.000000099473604e-05 92 rna-XM_019372734.1 23617050 5 17369363 17369454 Nicotiana attenuata 49451 CTG|GTAATGCACA...GATGGCTTAATT/CATGAGTTAATT...TACAG|CGG 1 1 19.698
128510275 GT-AG 0 2.632099298530677e-05 604 rna-XM_019372734.1 23617050 6 17368573 17369176 Nicotiana attenuata 49451 AAG|GTACTTGAAA...TTCTTCTTAGTA/TAGTACTTCATT...GGCAG|GTA 1 1 24.301
128510276 GT-AG 0 5.068638524498253e-05 599 rna-XM_019372734.1 23617050 7 17365521 17366119 Nicotiana attenuata 49451 CCT|GTAAGTAGTA...GATATTTTACCT/TGATATTTTACC...TTCAG|AAG 0 1 85.004
128510277 GT-AG 0 1.000000099473604e-05 370 rna-XM_019372734.1 23617050 8 17364555 17364924 Nicotiana attenuata 49451 AAG|GTAATATTTA...CAATTTCTAACT/CAATTTCTAACT...AACAG|GAG 2 1 99.753

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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]);