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 = 27150986

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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
151208826 GT-AG 0 2.752538548674281e-05 104 rna-XM_020715655.1 27150986 1 788754 788857 Phalaenopsis equestris 78828 AAG|GTCGCATTCC...TGGGGTTTGATT/ATATTACTGACT...CGTAG|CTT 0 1 7.65
151208827 GT-AG 0 1.000000099473604e-05 3432 rna-XM_020715655.1 27150986 2 788981 792412 Phalaenopsis equestris 78828 GTG|GTAATTCATT...TTTTTTTTTTTT/TTCTAGCATATT...TGCAG|AAT 0 1 18.852
151208828 GT-AG 0 0.0342341907171941 105 rna-XM_020715655.1 27150986 3 792551 792655 Phalaenopsis equestris 78828 AAT|GTACCTGCTC...TTCTTCTGATTC/CTTCTTCTGATT...CACAG|AAT 0 1 31.421
151208829 GT-AG 0 1.925422028391529e-05 5630 rna-XM_020715655.1 27150986 4 792755 798384 Phalaenopsis equestris 78828 TTT|GTAAGTAAAT...TTTCTTTTATTT/TTGTTACTAACC...TTTAG|GAA 0 1 40.437
151208830 GT-AG 0 0.0019419975870346 1205 rna-XM_020715655.1 27150986 5 798689 799893 Phalaenopsis equestris 78828 AGT|GTAAGCATCA...GATGCTTTGAAC/CAATCTCTCATA...TAAAG|ATG 1 1 68.124
151208831 GT-AG 0 0.0004725556994718 107 rna-XM_020715655.1 27150986 6 800118 800224 Phalaenopsis equestris 78828 AAG|GTTTGCATAC...ATTCTCTTATTT/CATTCTCTTATT...TGCAG|AGG 0 1 88.525
151208832 GT-AG 0 0.0119807316723693 3524 rna-XM_020715655.1 27150986 7 800312 803835 Phalaenopsis equestris 78828 GCT|GTAAGCTATT...ATGCCTTTATTG/AATGCCTTTATT...TGCAG|CCT 0 1 96.448

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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]);