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 = 8594617

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
46266431 GT-AG 0 1.000000099473604e-05 1534 rna-XM_025100934.1 8594617 1 22302534 22304067 Citrus sinensis 2711 AAG|GTAAGTTACT...ATATTGTTAATT/ATATTGTTAATT...TACAG|GTA 1 1 61.387
46266432 GT-AG 0 1.000000099473604e-05 84 rna-XM_025100934.1 8594617 2 22302313 22302396 Citrus sinensis 2711 GAG|GTAAGTACTG...GCACTTTTCGTC/CTACTGCTAAAA...TACAG|TGT 0 1 65.361
46266433 GT-AG 0 1.000000099473604e-05 144 rna-XM_025100934.1 8594617 3 22302114 22302257 Citrus sinensis 2711 CTT|GTGAAAAATG...ATTTCCATAATC/ATTGATTTCATG...ATTAG|TTG 1 1 66.957
46266434 GT-AG 0 7.307229766193156e-05 3192 rna-XM_025100934.1 8594617 4 22298787 22301978 Citrus sinensis 2711 GAG|GTAAGCATTT...AAAATTTTAATT/ATTTTATTTATC...CTCAG|TTG 1 1 70.873
46266435 GT-AG 0 3.394459790850362e-05 101 rna-XM_025100934.1 8594617 5 22298410 22298510 Citrus sinensis 2711 AAT|GTTACGAGCT...ATCTTCTTGAAA/GAAGAACTGACA...TTTAG|CGA 1 1 78.88
46266436 GT-AG 0 2.250733675308892e-05 88 rna-XM_025100934.1 8594617 6 22298140 22298227 Citrus sinensis 2711 AAG|GTAATCATTT...AATTTTTTTACG/AATTTTTTTACG...TACAG|GAG 0 1 84.16

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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]);