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 = 34243604

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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
191722393 GT-AG 0 1.000000099473604e-05 513 rna-XM_009668943.1 34243604 1 68688 69200 Struthio camelus 8801 CAA|GTGAGTAGGG...CCATCTTTAACT/CCATCTTTAACT...CTTAG|GGT 2 1 4.848
191722394 GT-AG 0 1.000000099473604e-05 159 rna-XM_009668943.1 34243604 2 69349 69507 Struthio camelus 8801 GAT|GTGAGTGAGG...GGTATCTAAGAC/GGGTATCTAAGA...GGCAG|CTG 0 1 17.662
191722395 GT-AG 0 2.38975875798756e-05 223 rna-XM_009668943.1 34243604 3 69626 69848 Struthio camelus 8801 GCG|GTAAGCGTTG...CGTTTTTTCACT/CGTTTTTTCACT...AATAG|CTG 1 1 27.879
191722396 GT-AG 0 1.000000099473604e-05 199 rna-XM_009668943.1 34243604 4 69968 70166 Struthio camelus 8801 CAG|GTGAGGAGGA...TGTGCCTCATCC/ATGTGCCTCATC...CACAG|GTT 0 1 38.182
191722397 GT-AG 0 0.0001113099847823 487 rna-XM_009668943.1 34243604 5 70367 70853 Struthio camelus 8801 TCC|GTAAGTCTAA...GTTGCCCTAGCC/CTAGCCCTCACT...TCCAG|CGA 2 1 55.498
191722398 GT-AG 0 1.000000099473604e-05 81 rna-XM_009668943.1 34243604 6 70971 71051 Struthio camelus 8801 CAG|GTAGTGCCCA...CCCGTCTTATGG/GCCCGTCTTATG...CCCAG|CAT 2 1 65.628
191722399 GT-AG 0 1.000000099473604e-05 151 rna-XM_009668943.1 34243604 7 71197 71347 Struthio camelus 8801 TTG|GTTAGCATGA...TTCCCCCCAACC/ACAGCTGTCACT...CACAG|TCC 0 1 78.182
191722400 GT-AG 0 1.000000099473604e-05 192 rna-XM_009668943.1 34243604 8 71447 71638 Struthio camelus 8801 CAG|GTAGGTACAT...TGCCTCCTGTCC/CCGGCGCTCACC...ACTAG|CTA 0 1 86.753

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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]);