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 = 36995190

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Suggested facets: phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
204419023 GT-AG 0 0.0001363362068579 470 rna-XM_038845282.1 36995190 2 7257466 7257935 Tripterygium wilfordii 458696 ATC|GTAAGCAATA...CTTGTTTTACAA/ATGTAACTAACT...GCCAG|CCT 1 1 7.108
204419024 GT-AG 0 0.0001068313876007 695 rna-XM_038845282.1 36995190 3 7258211 7258905 Tripterygium wilfordii 458696 CCT|GTAAGTTATT...GATTCCTTTTAA/GTAAGTTTGATT...TGCAG|GTG 0 1 13.216
204419025 GT-AG 0 3.0248821138437647e-05 152 rna-XM_038845282.1 36995190 4 7260415 7260566 Tripterygium wilfordii 458696 GAG|GTAAACCATT...TCCCCTTTATTT/TTATTTCTAATT...TTCAG|GTT 0 1 46.735
204419026 GT-AG 0 0.000440636625362 393 rna-XM_038845282.1 36995190 5 7260714 7261106 Tripterygium wilfordii 458696 TTT|GTAAGTACTT...GTTTTCTTATTT/TGTTTTCTTATT...TCCAG|CTG 0 1 50.0
204423906 GT-AG 0 1.000000099473604e-05 1483 rna-XM_038845282.1 36995190 1 7255882 7257364 Tripterygium wilfordii 458696 CTG|GTGAGAATCT...TGTACCTCATTA/TTGTACCTCATT...TGCAG|GGA   0 6.02
204423907 GT-AG 0 0.0002062273043876 685 rna-XM_038845282.1 36995190 6 7263094 7263778 Tripterygium wilfordii 458696 CAG|GTTCCTCCTG...CTTTTATTAATT/CTTTTATTAATT...TGCAG|GGC   0 94.136

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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]);