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)

6 rows where transcript_id = 30001149

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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
168077454 GT-AG 0 1.843361867662495e-05 487 rna-XM_009353393.2 30001149 2 3727465 3727951 Pyrus x bretschneideri 225117 CTG|GTAAGTTCTT...AAGATTTTGACT/AAGATTTTGACT...TGCAG|GTT 0 1 63.484
168077455 GT-AG 0 1.000000099473604e-05 306 rna-XM_009353393.2 30001149 3 3728172 3728477 Pyrus x bretschneideri 225117 CAT|GTGAGTCCAA...TTTGTGTTAACA/TTTGTGTTAACA...TGCAG|TAT 1 1 69.318
168077456 GT-AG 0 4.99965812137974e-05 513 rna-XM_009353393.2 30001149 4 3728997 3729509 Pyrus x bretschneideri 225117 CAG|GTAAGCAATA...TTTCCTTTAACA/TTTCCTTTAACA...TGCAG|CTC 1 1 83.081
168077457 GT-AG 0 0.0001129256731467 117 rna-XM_009353393.2 30001149 5 3729985 3730101 Pyrus x bretschneideri 225117 TTT|GTAAGTAATG...ATGTTCTTGATT/ATGTTCTTGATT...CACAG|GAG 2 1 95.678
168077458 GT-AG 0 1.000000099473604e-05 256 rna-XM_009353393.2 30001149 6 3730166 3730421 Pyrus x bretschneideri 225117 AGG|GTAAGTCCTT...GTCAATTTGAAG/ATGTATTTCACA...TGCAG|CTT 0 1 97.375
168079600 GT-AG 0 1.000000099473604e-05 243 rna-XM_009353393.2 30001149 1 3724688 3724930 Pyrus x bretschneideri 225117 CAG|GTGATTGGAG...TTTGTTTTAGTT/TTTTGTTTAATT...TTCAG|CTG   0 8.433

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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]);