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 = 29320850

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Suggested facets: 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
163356889 GT-AG 0 2.2678010294458576e-05 165 rna-XM_021969986.1 29320850 3 217757 217921 Prunus avium 42229 GTG|GTATGGGACC...TATGCTTTATTC/TTATGCTTTATT...TCCAG|GTC 2 1 18.505
163356890 GT-AG 0 0.0095007819711461 104 rna-XM_021969986.1 29320850 4 218277 218380 Prunus avium 42229 AGA|GTATGTTATT...ATTATTGTGATA/ATTATTGTCAAT...TCCAG|GTT 0 1 34.489
163356891 GT-AG 0 0.0083766644719024 260 rna-XM_021969986.1 29320850 5 218624 218883 Prunus avium 42229 CAG|GTTTACTTTT...TGTTTTTTACTA/CTGTTTTTTACT...TACAG|GAT 0 1 45.43
163356892 GT-AG 0 1.0816672917185852e-05 142 rna-XM_021969986.1 29320850 6 218941 219082 Prunus avium 42229 GAG|GTGACTACAA...ATTCCCTTATTT/TATTTGTTTACA...TTCAG|GTG 0 1 47.996
163356893 GT-AG 0 1.88510406626933e-05 191 rna-XM_021969986.1 29320850 7 219164 219354 Prunus avium 42229 CCG|GTACTTAATG...TTGCTTGTGATT/TTGTGATTTATT...TATAG|GTG 0 1 51.643
163356894 GT-AG 0 1.000000099473604e-05 375 rna-XM_021969986.1 29320850 8 219417 219791 Prunus avium 42229 GGA|GTAAGTAAAC...AAATTGTTAGCT/TATGTTTTTATG...CACAG|GTT 2 1 54.435
163357302 GT-AG 0 1.000000099473604e-05 98 rna-XM_021969986.1 29320850 1 216806 216903 Prunus avium 42229 AAT|GTAGGGAATC...AATCTCATAATT/TCTGTTCTTATG...GTTAG|ATT   0 8.104
163357303 GT-AG 0 0.0001113089014909 612 rna-XM_021969986.1 29320850 2 217001 217612 Prunus avium 42229 TCT|GTAAGTACTG...CTTCCCATAATC/ATCTTGTTAACC...TACAG|AAA   0 12.472

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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]);