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 = 4118562

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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
21287052 GT-AG 0 1.000000099473604e-05 119 rna-XM_006675898.1 4118562 1 715020 715138 Batrachochytrium dendrobatidis 109871 GAG|GTAATAACTT...AGTGTTTTGATC/TTTGATCTAACT...TATAG|CAT 0 1 6.655
21287053 GT-AG 0 0.0024998231312395 70 rna-XM_006675898.1 4118562 2 715272 715341 Batrachochytrium dendrobatidis 109871 CCG|GTAGACTATG...TTGTCTTTATTT/GTTATTTTAATT...TGTAG|GAT 1 1 10.696
21287054 GT-AG 0 1.000000099473604e-05 146 rna-XM_006675898.1 4118562 3 715867 716012 Batrachochytrium dendrobatidis 109871 ATG|GTCAGTATTT...TTCCTTTTAATT/TTTGTTTTGATG...TCAAG|GCT 1 1 26.648
21287055 GT-AG 0 1.2130450883095433e-05 106 rna-XM_006675898.1 4118562 4 716581 716686 Batrachochytrium dendrobatidis 109871 CAG|GTGAGCTTTA...ATGTCTTTAATA/TATTTTTTTACA...CTTAG|TTC 2 1 43.908
21287056 GT-AG 0 1.000000099473604e-05 98 rna-XM_006675898.1 4118562 5 717744 717841 Batrachochytrium dendrobatidis 109871 AAG|GTAGTGTATT...TCTACTTTTACA/TCTACTTTTACA...TTCAG|GAT 0 1 76.026
21287057 GT-AG 0 1.000000099473604e-05 97 rna-XM_006675898.1 4118562 6 718351 718447 Batrachochytrium dendrobatidis 109871 TGG|GTGAGTAAAA...GTGTATTTATAT/TGTGTATTTATA...TTTAG|CTA 2 1 91.492
21287058 GT-AG 0 1.000000099473604e-05 40 rna-XM_006675898.1 4118562 7 718707 718746 Batrachochytrium dendrobatidis 109871 CAG|GTAAATTGTC...GTACTATTGACT/GTACTATTGACT...TCCAG|CGG 0 1 99.362

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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]);