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 = 12758623

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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
67905091 GT-AG 0 0.000192940454389 71 rna-XM_022895022.1 12758623 1 3225207 3225277 Durio zibethinus 66656 GAA|GTGACATTGA...GACTCCATAATT/TTGTAGCTAAGA...ATTAG|TCT 0 1 2.199
67905092 GT-AG 0 0.0011687149568591 889 rna-XM_022895022.1 12758623 2 3225812 3226700 Durio zibethinus 66656 CAG|GTTGCTTTAC...GTTATTTTAATT/GTTATTTTAATT...TGCAG|GTT 0 1 25.226
67905093 GT-AG 0 1.000000099473604e-05 184 rna-XM_022895022.1 12758623 3 3226799 3226982 Durio zibethinus 66656 CAG|GTAATTCAAG...TGAATTTTACTG/ATGAATTTTACT...TCCAG|GAC 2 1 29.452
67905094 GT-AG 0 1.000000099473604e-05 117 rna-XM_022895022.1 12758623 4 3227559 3227675 Durio zibethinus 66656 AAG|GTAATTCGTT...AGCATCTTAAGT/AAGATGATCATG...TACAG|GGA 2 1 54.291
67905095 GT-AG 0 4.3068974872873374e-05 112 rna-XM_022895022.1 12758623 5 3227929 3228040 Durio zibethinus 66656 CAA|GTAATTTAAG...TTTACTTTAAGA/GTTGTGTTTACT...TGCAG|TCA 0 1 65.201
67905096 GT-AG 0 0.000298152836677 126 rna-XM_022895022.1 12758623 6 3228224 3228349 Durio zibethinus 66656 CAG|GTATTATAAT...CTTTCCATAATT/AATTCTCTTACA...ATCAG|TTC 0 1 73.092

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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]);