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 = 24215938

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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
132129064 GT-AG 0 1.000000099473604e-05 1704 rna-XM_031618360.1 24215938 1 17276463 17278166 Nymphaea colorata 210225 CAG|GTCAGGAGAT...AATGCTCTAATT/AATGCTCTAATT...TTCAG|ATC 0 1 3.676
132129065 GT-AG 0 0.0001132262657446 439 rna-XM_031618360.1 24215938 2 17274947 17275385 Nymphaea colorata 210225 AAG|GTAATTTCTG...TTTTCTTTAGCA/TTTTTCTTTAGC...TGCAG|GGT 0 1 23.081
132129066 GT-AG 0 4.194079650676479e-05 1845 rna-XM_031618360.1 24215938 3 17273007 17274851 Nymphaea colorata 210225 CAG|GTTTTTTATA...TGGATATTATTT/GGCTTTCTAATG...CACAG|GAA 2 1 24.793
132129067 GT-AG 0 1.000000099473604e-05 499 rna-XM_031618360.1 24215938 4 17272333 17272831 Nymphaea colorata 210225 AAG|GTACGTGAAT...GTGCTTTTGACT/GTGCTTTTGACT...TTCAG|GTG 0 1 27.946
132129068 GT-AG 0 1.000000099473604e-05 92 rna-XM_031618360.1 24215938 5 17271199 17271290 Nymphaea colorata 210225 CAT|GTAAGATCCA...TCTCTTTTGATT/CATTATCTTATT...TGCAG|GTC 1 1 46.721
132129069 GT-AG 0 3.1023358836259525e-05 1048 rna-XM_031618360.1 24215938 6 17269120 17270167 Nymphaea colorata 210225 AAG|GTTAGCTCTC...TAGTTCTTAATT/CTTAATTTAATT...TGAAG|TTC 0 1 65.297
132129070 GT-AG 0 1.000000099473604e-05 1479 rna-XM_031618360.1 24215938 7 17266523 17268001 Nymphaea colorata 210225 GGG|GTAAGTGCAT...ATTTCATTATAG/ATCATTTTCATT...TGCAG|GGG 2 1 85.441

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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]);