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 = 38690364

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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
213933716 GT-GG 0 1.000000099473604e-05 71 rna-XM_025078496.1 38690364 2 5447730 5447800 Ziziphus jujuba 326968 TGG|GTTTTGCAAT...ACACCCTAAACC/AACACCCTAAAC...TGTGG|GTT 2 1 48.839
213933717 GT-AG 0 0.0058263330862089 728 rna-XM_025078496.1 38690364 3 5446506 5447233 Ziziphus jujuba 326968 TTG|GTATGTTCTT...CTCTTCTTGTCT/TTAAGTCTGATT...TCCAG|GTT 0 1 61.495
213933718 GT-AG 0 1.000000099473604e-05 304 rna-XM_025078496.1 38690364 4 5445982 5446285 Ziziphus jujuba 326968 CAT|GTGAGTCAAA...TATTTTTTAGAC/TCATTTTTCATT...TACAG|TGT 1 1 67.109
213933719 GT-AG 0 1.000000099473604e-05 960 rna-XM_025078496.1 38690364 5 5444470 5445429 Ziziphus jujuba 326968 CAG|GTAAGCCTAA...GATTGTTTATCC/TATTTTCTCATG...TGCAG|CTC 1 1 81.194
213933720 GT-AG 0 0.000398302640706 652 rna-XM_025078496.1 38690364 6 5443238 5443889 Ziziphus jujuba 326968 TTT|GTAAGTTTTT...GTAGCTCTAATT/CGTTTGTTCATT...TACAG|GAG 2 1 95.994
213933721 GT-AG 0 1.000000099473604e-05 471 rna-XM_025078496.1 38690364 7 5442703 5443173 Ziziphus jujuba 326968 AAG|GTAATATATG...AAGCTTTTACTT/CTTTTACTTATG...GACAG|CTT 0 1 97.627
213945277 GT-AG 0 1.000000099473604e-05 460 rna-XM_025078496.1 38690364 1 5449740 5450199 Ziziphus jujuba 326968 CAG|GTGATTGGAG...GTATCTTTTGTT/CATGGGCTGACG...TATAG|TGT   0 8.523

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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]);