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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 = 2107317

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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
11507063 GT-AG 0 1.000000099473604e-05 20678 rna-XM_009870073.1 2107317 1 114132 134809 Apaloderma vittatum 57397 CAA|GTAAGTACCA...CTGCCCTTTGTG/GCTCTGCTAACC...TGCAG|GTG 2 1 14.58
11507064 GT-AG 0 1.000000099473604e-05 8126 rna-XM_009870073.1 2107317 2 105839 113964 Apaloderma vittatum 57397 AAG|GTTAGCAGCG...TGCACCTTTTCA/CACCTTTTCACT...TCTAG|AGG 1 1 27.813
11507065 GT-AG 0 1.000000099473604e-05 1988 rna-XM_009870073.1 2107317 3 103676 105663 Apaloderma vittatum 57397 CTG|GTAGGTGCTC...TTTTTTTTTTCC/TTTTTCCCCAAT...TTCAG|GGC 2 1 41.68
11507066 GT-AG 0 0.0002634592555748 40001 rna-XM_009870073.1 2107317 4 63477 103477 Apaloderma vittatum 57397 CAG|GTATGTCACA...TTTTCCTTGTTT/ATGTCAGTAATT...TACAG|GAC 2 1 57.369
11507067 GT-AG 0 1.000000099473604e-05 51911 rna-XM_009870073.1 2107317 5 11448 63358 Apaloderma vittatum 57397 AAG|GTTTGTGACA...TATATGTGAGCT/TTATATGTGAGC...TGCAG|GTC 0 1 66.719
11507068 GT-AG 0 1.000000099473604e-05 3400 rna-XM_009870073.1 2107317 6 7862 11261 Apaloderma vittatum 57397 GAG|GTACGACCAT...GTTTCTTTATTT/TGTTTCTTTATT...TTCAG|AAT 0 1 81.458
11507069 GT-AG 0 1.000000099473604e-05 1220 rna-XM_009870073.1 2107317 7 6504 7723 Apaloderma vittatum 57397 GAG|GTAATTAAGA...CATTTTTTATTT/GCATTTTTTATT...TACAG|CTT 0 1 92.393

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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]);
Powered by Datasette · Queries took 26.701ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)