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 = 29402350

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Suggested facets: score, length, 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
163707215 GT-AG 0 0.0010917676806809 400 rna-XM_007226660.2 29402350 1 12990796 12991195 Prunus persica 3760 CGA|GTAAATTTCT...ATATCCTTTTCA/ATCCTTTTCAAT...GGCAG|GCA 2 1 11.091
163707216 GT-AG 0 7.225078752944229e-05 117 rna-XM_007226660.2 29402350 2 12989580 12989696 Prunus persica 3760 ACT|GTAAGTATAA...TGTTTTTTATTA/ATGTTTTTTATT...GTTAG|GGA 0 1 30.563
163707217 GT-AG 0 9.514929386079143e-05 96 rna-XM_007226660.2 29402350 3 12989205 12989300 Prunus persica 3760 AAG|GTACTTTAAG...TTATTATTATTT/TATTATTTCAAT...CACAG|CAT 0 1 35.507
163707218 GT-AG 0 1.000000099473604e-05 1059 rna-XM_007226660.2 29402350 4 12988060 12989118 Prunus persica 3760 AAG|GTACTTGAAT...ATACCCTTTTCA/AAATGCTTCATA...GGCAG|GCA 2 1 37.03
163707219 GT-AG 0 1.000000099473604e-05 140 rna-XM_007226660.2 29402350 5 12986833 12986972 Prunus persica 3760 ACA|GTAAGTAAAT...TTTTTCTTTTTT/TTTTTAATTATA...ATTAG|GGA 0 1 56.29
163707220 GT-AG 0 7.438688416382487e-05 130 rna-XM_007226660.2 29402350 6 12986412 12986541 Prunus persica 3760 CAG|GTACTTTAAA...TTATTATTATTT/TATTTTTTCAAT...CACAG|CAT 0 1 61.446
163707221 GT-AG 0 1.152680233125232e-05 130 rna-XM_007226660.2 29402350 7 12985040 12985169 Prunus persica 3760 CAG|GTTACTTATT...GACTAATTAATA/GCAGGACTAATT...TGCAG|ATG 0 1 83.451
163729421 GT-AG 0 1.000000099473604e-05 178 rna-XM_007226660.2 29402350 8 12984295 12984472 Prunus persica 3760 ATT|GTGAGTTCGC...GAATTCTAAGTT/TCTAAGTTAATT...CTTAG|GTG   0 93.498

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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]);