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 = 2121809

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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
11621239 GT-AG 0 1.000000099473604e-05 62 rna-XM_009822758.1 2121809 1 519977 520038 Aphanomyces astaci 112090 GCG|GTAGGATGTC...TTCCTCTTGTAC/TGTACGTTCATG...CCAAG|GTC 1 1 17.61
11621240 GT-AG 0 0.0005371919573954 48 rna-XM_009822758.1 2121809 2 519793 519840 Aphanomyces astaci 112090 ATG|GTACCATATC...ACGTCCATTGTT/TTGGAACTCACG...TGTAG|GCT 2 1 21.555
11621241 GT-AG 0 2.3880263229637413e-05 74 rna-XM_009822758.1 2121809 3 519657 519730 Aphanomyces astaci 112090 AGG|GTACTTGACA...TAACTTTTGATG/TGTTACCTAACT...TGTAG|GGG 1 1 23.354
11621242 GT-AG 0 1.000000099473604e-05 49 rna-XM_009822758.1 2121809 4 519078 519126 Aphanomyces astaci 112090 GAC|GTGCGTACCG...TTTGACTTATTA/TTTTGACTTATT...GGTAG|ATT 0 1 38.729
11621243 GT-AG 0 6.013289199868438e-05 61 rna-XM_009822758.1 2121809 5 518815 518875 Aphanomyces astaci 112090 GAG|GTGTTCCAAA...TACTCCTCAACT/CTACTCCTCAAC...TATAG|GCG 1 1 44.589
11621244 GT-AG 0 1.000000099473604e-05 88 rna-XM_009822758.1 2121809 6 517101 517188 Aphanomyces astaci 112090 ATG|GTGAGCTCTC...GGATCTGTGACA/GGTTTTTGGATC...TGTAG|GGG 1 1 91.761
11621245 GT-AG 0 1.699798859718047e-05 70 rna-XM_009822758.1 2121809 7 516875 516944 Aphanomyces astaci 112090 CTC|GTACGTGATA...ATTGACATATTT/ATGAAATTGACA...TGTAG|CTA 1 1 96.287

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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]);