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 = 8594605

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Suggested facets: dinucleotide_pair, 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
46266313 GT-AG 0 1.000000099473604e-05 2164 rna-XM_006466042.2 8594605 2 21721857 21724020 Citrus sinensis 2711 CAG|GTTAGCGACT...TATTTTTTTGCT/TTTTGCTTTACG...CTTAG|GTG 1 1 37.713
46266314 GC-AG 0 1.6017542604385006e-05 916 rna-XM_006466042.2 8594605 3 21719599 21720514 Citrus sinensis 2711 CAG|GCATGTCTCT...CTGTCTTTGACT/CTGTCTTTGACT...CACAG|AAC 2 1 73.404
46266315 GT-AG 0 0.0001572400494429 632 rna-XM_006466042.2 8594605 4 21718687 21719318 Citrus sinensis 2711 CGA|GTAAGCAGTT...CTTGCTTTATTT/ACTTGCTTTATT...TTTAG|GAG 0 1 80.851
46266316 GT-AG 0 1.000000099473604e-05 111 rna-XM_006466042.2 8594605 5 21718468 21718578 Citrus sinensis 2711 CAG|GTTTGTAGGA...GTTGTCTAATCT/TATTTATTTATT...TGCAG|TCT 0 1 83.723
46266317 GT-AG 0 0.000165360379346 1408 rna-XM_006466042.2 8594605 6 21716781 21718188 Citrus sinensis 2711 AAT|GTAAGTTTTA...TACTTCTTGTTC/TTGCAACTAACT...TGCAG|GTT 0 1 91.144
46266318 GT-AG 0 1.000000099473604e-05 967 rna-XM_006466042.2 8594605 7 21715670 21716636 Citrus sinensis 2711 CAG|GTAAAAGCCT...TTTTTTTTCACT/TTTTTTTTCACT...TTCAG|GAA 0 1 94.973
46275524 GT-AG 0 4.628586049637328e-05 756 rna-XM_006466042.2 8594605 1 21725280 21726035 Citrus sinensis 2711 TCT|GTAAGTATTT...GTTTCCAAAGCT/CATGACCTGACA...CTCAG|GTT   0 5.612

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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]);