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 = 29320846

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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
163356855 GT-AG 0 4.860764784151261e-05 303 rna-XM_021958569.1 29320846 2 103224 103526 Prunus avium 42229 CAG|GTAGATGTCC...GTGTTCTTATTT/GGTGTTCTTATT...ATTAG|AGT 0 1 21.512
163356856 GT-AG 0 1.000000099473604e-05 518 rna-XM_021958569.1 29320846 3 102553 103070 Prunus avium 42229 ATT|GTGAGTATTA...TTTCTTTTGATT/TTTCTTTTGATT...GTTAG|GGT 0 1 28.354
163356857 GT-AG 0 3.120709002539469e-05 532 rna-XM_021958569.1 29320846 4 101952 102483 Prunus avium 42229 GAG|GTATTGAGTT...GGTTCCTGGAAT/CGTCTGCTTATA...TCCAG|GTA 0 1 31.44
163356858 GT-AG 0 0.0082285659375757 90 rna-XM_021958569.1 29320846 5 101592 101681 Prunus avium 42229 GTG|GTATGTTACT...TTCCTTTTAAAT/TTTTAAATGATT...TCTAG|TGT 0 1 43.515
163356859 GT-AG 0 0.0002505746887233 253 rna-XM_021958569.1 29320846 6 100988 101240 Prunus avium 42229 CAG|GTATTATACT...GTAGTCTTGAAA/TATTGTCTTACA...TACAG|TAT 0 1 59.213
163356860 GT-AG 0 6.030569243648245e-05 180 rna-XM_021958569.1 29320846 7 100530 100709 Prunus avium 42229 AAG|GTTTCGCACT...GTGTTCTTTTTG/ATTTGTATAAAA...TACAG|GGT 2 1 71.646
163356861 GT-AG 0 1.000000099473604e-05 298 rna-XM_021958569.1 29320846 8 99887 100184 Prunus avium 42229 CAG|GTACGGGACT...TGTGCTTTGAGG/TTGGAATGCATT...GACAG|GTA 2 1 87.075
163357300 GT-AG 0 1.000000099473604e-05 553 rna-XM_021958569.1 29320846 1 103859 104411 Prunus avium 42229 CAG|GTCCGATTTT...TTTTCCTTGTAA/TTGTTGCTAACA...TATAG|GAT   0 7.424

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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]);