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 = 24216003

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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
132129992 GT-AG 0 1.000000099473604e-05 1732 rna-XM_031633628.1 24216003 1 13405874 13407605 Nymphaea colorata 210225 GAG|GTGATATTCA...TTCTCTGTATTT/TCTGTATTTACA...TCCAG|CCA 0 1 10.531
132129993 GT-AG 0 1.000000099473604e-05 299 rna-XM_031633628.1 24216003 2 13405461 13405759 Nymphaea colorata 210225 GAG|GTGAGGCTTT...TGATTCTTAACA/GTTGCTTTCACT...TCTAG|GTA 0 1 13.732
132129994 GT-AG 0 3.127751937623307e-05 875 rna-XM_031633628.1 24216003 3 13404331 13405205 Nymphaea colorata 210225 AGG|GTAATTTCTC...TTATATTTAATA/TTTGTATTCATC...TGCAG|TCT 0 1 20.893
132129995 GT-AG 0 0.0053146271568506 760 rna-XM_031633628.1 24216003 4 13403451 13404210 Nymphaea colorata 210225 GCC|GTATGTAATT...ATTCTCTTTCCA/CAAGTTCTGATT...TCAAG|AGC 0 1 24.263
132129996 GT-AG 0 0.6914093278558827 484 rna-XM_031633628.1 24216003 5 13402346 13402829 Nymphaea colorata 210225 AGG|GTATTCTTTC...ATGAGCTTAATT/ATGAGCTTAATT...TGCAG|AAT 0 1 41.702
132129997 GT-AG 0 0.1246056098018351 1053 rna-XM_031633628.1 24216003 6 13399235 13400287 Nymphaea colorata 210225 ATG|GTAACCTTCT...TCACCCTTGGTT/TTGTGATTCACC...TGCAG|GAC 0 1 99.495

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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]);