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 = 2107363

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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
11507679 GT-AG 0 0.3167976375644414 2294 rna-XM_009867759.1 2107363 2 57709 60002 Apaloderma vittatum 57397 GAT|GTATGTTTCG...TTTACTTTAATT/TTTTTTTTTATT...TTTAG|GAC 0 1 11.782
11507680 GT-AG 0 1.000000099473604e-05 1400 rna-XM_009867759.1 2107363 3 56180 57579 Apaloderma vittatum 57397 AAT|GTGAGTATCC...TCTGTTTTATCC/TTCTGTTTTATC...TCCAG|GCT 0 1 24.773
11507681 GT-AG 0 2.165922609650485e-05 198 rna-XM_009867759.1 2107363 4 55886 56083 Apaloderma vittatum 57397 GAA|GTAAGTGTTG...CTGTTTTTATTA/TCTGTTTTTATT...TGCAG|AGG 0 1 34.441
11507682 GT-AG 0 1.000000099473604e-05 345 rna-XM_009867759.1 2107363 5 55403 55747 Apaloderma vittatum 57397 GAG|GTAAAAAACT...TTGGTTTTGAAA/TTGGTTTTGAAA...CCCAG|GTT 0 1 48.338
11507683 GT-AG 0 1.000000099473604e-05 1605 rna-XM_009867759.1 2107363 6 53744 55348 Apaloderma vittatum 57397 TTG|GTAAGATTTT...TTATTCTTCCCT/TCTTCCCTCACT...CAAAG|CTG 0 1 53.776
11507684 GT-AG 0 0.4268736662645193 1095 rna-XM_009867759.1 2107363 9 52499 53593 Apaloderma vittatum 57397 AAG|GTATACTTTC...TAAGTTTTAAAC/TTTAAACTAAAT...TCCAG|TTT 0 1 68.58
11507685 GT-AG 0 1.000000099473604e-05 853 rna-XM_009867759.1 2107363 10 51529 52381 Apaloderma vittatum 57397 GAG|GTAGTAGATG...GCTAACTTAAAA/GTAATATTCATT...TGCAG|AGC 0 1 80.363

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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]);