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 = 8322044

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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
44701975 GT-AG 0 1.000000099473604e-05 9611 rna-XM_006830728.1 8322044 1 50205697 50215307 Chrysochloris asiatica 185453 TTG|GTAAGTGCTT...GTGGCTCTGCCG/GTGGGTGTCATG...CCTAG|GTC 1 1 10.549
44701976 GT-AG 0 1.000000099473604e-05 1026 rna-XM_006830728.1 8322044 2 50204482 50205507 Chrysochloris asiatica 185453 TCG|GTGAGTGGAA...CCAGCTTGAGCT/CTTGAGCTGATT...GCCAG|GTC 1 1 18.72
44701977 GT-AG 0 1.000000099473604e-05 146 rna-XM_006830728.1 8322044 3 50204156 50204301 Chrysochloris asiatica 185453 CGG|GTGAGACGCT...TCTGCTTTCCTG/TTGAAGGTGACC...CACAG|GCC 1 1 26.502
44701978 GT-AG 0 1.000000099473604e-05 326 rna-XM_006830728.1 8322044 4 50202793 50203118 Chrysochloris asiatica 185453 AAG|GTGAGAGGGC...CCCCTCTTGCCC/ACCCTCCTGATT...GACAG|GCC 0 1 71.336
44701979 GT-AG 0 1.000000099473604e-05 102 rna-XM_006830728.1 8322044 5 50202591 50202692 Chrysochloris asiatica 185453 CAG|GTGAGCCCCC...CTTTCCTCACCA/GCTTTCCTCACC...TGCAG|CTC 1 1 75.659
44701980 GT-AG 0 1.000000099473604e-05 1690 rna-XM_006830728.1 8322044 6 50200689 50202378 Chrysochloris asiatica 185453 CAG|GTGCGCGGGG...TGCTCCTCACCC/GTGCTCCTCACC...TCTAG|TAC 0 1 84.825

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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]);