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)

5 rows where transcript_id = 8594602

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Suggested facets: in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
46266297 GT-AG 0 0.0133986313948392 1421 rna-XM_025096186.1 8594602 4 7252979 7254399 Citrus sinensis 2711 AAG|GTATGTTTTC...CAGATTTTAATT/CAGATTTTAATT...CCCAG|GAT 0 1 74.441
46266298 GT-AG 0 0.0003735177845865 194 rna-XM_025096186.1 8594602 5 7255342 7255535 Citrus sinensis 2711 GAG|GTACTCACAT...TTGTCATTGATA/ATACTGTTGATT...TGCAG|GCA 0 1 97.839
46275521 GT-AG 0 0.0006317191033699 491 rna-XM_025096186.1 8594602 1 7248785 7249275 Citrus sinensis 2711 TCG|GTACTGTCTT...TCCTTTTTATCC/TTCCTTTTTATC...ACCAG|TAA   0 7.079
46275522 GT-AG 0 2.511594108448287e-05 887 rna-XM_025096186.1 8594602 2 7249340 7250226 Citrus sinensis 2711 AAG|GTACGTGACA...CTTTTCTTACTT/GCTTTTCTTACT...ATCAG|ATA   0 8.669
46275523 GT-AG 0 0.0033592266222317 97 rna-XM_025096186.1 8594602 3 7250310 7250406 Citrus sinensis 2711 AAG|GTATAATTCA...GAACTTTTAATA/TATATCCTAATG...ACTAG|GCT   0 10.73

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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]);