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)

6 rows where transcript_id = 29320865

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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
163356999 GT-AG 0 8.246598022720598e-05 865 rna-XM_021966593.1 29320865 1 140186 141050 Prunus avium 42229 CCA|GTGAGTTTTT...AATTCCTTGATT/AATTCCTTGATT...TTCAG|GTG 0 1 8.351
163357000 GT-AG 0 1.000000099473604e-05 122 rna-XM_021966593.1 29320865 2 141103 141224 Prunus avium 42229 AAG|GTACAGAGTC...ACATTTTTATTT/TTTTTATTTATG...TGCAG|CAC 1 1 11.969
163357001 GT-AG 0 0.0007071392353252 337 rna-XM_021966593.1 29320865 3 141306 141642 Prunus avium 42229 ATG|GTAACTATCT...GGGCCTTTTATT/CTCTCTCTCACA...TATAG|GGA 1 1 17.606
163357002 GT-AG 0 3.3128880411832555e-05 322 rna-XM_021966593.1 29320865 4 141762 142083 Prunus avium 42229 CGG|GTATTGAAAC...CTTGCCATAATG/AATGGATTGATG...AGTAG|GCA 0 1 25.887
163357003 GT-AG 0 0.0515924812862703 132 rna-XM_021966593.1 29320865 5 142304 142435 Prunus avium 42229 GCA|GTATGTACTT...TTTCTTTTAATT/TTAATTTTAATT...TGCAG|TGG 1 1 41.197
163357004 GT-AG 0 1.000000099473604e-05 150 rna-XM_021966593.1 29320865 6 142555 142704 Prunus avium 42229 AAG|GTAAATGCTA...ATCTTCTAATTG/AATCTTCTAATT...CACAG|GTC 0 1 49.478

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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]);