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 = 30001178

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Suggested facets: dinucleotide_pair, 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
168077755 GT-AG 0 0.0871433569969498 344 rna-XM_018650209.1 30001178 2 1475017 1475360 Pyrus x bretschneideri 225117 TAG|GTATATTTCC...GTTTTTTTAAAC/GTTTTTTTAAAC...TGCAG|CTC 1 1 51.946
168077756 GT-AG 0 1.353171159488505e-05 111 rna-XM_018650209.1 30001178 3 1474777 1474887 Pyrus x bretschneideri 225117 AAG|GTAAACAAAT...TTGGTTTTAATT/TTGGTTTTAATT...CACAG|GTA 1 1 56.965
168077757 GT-AG 0 1.000000099473604e-05 1285 rna-XM_018650209.1 30001178 4 1473295 1474579 Pyrus x bretschneideri 225117 AAG|GTAAGTAGTT...ATTTTCTTGAAA/ATTTTCTTGAAA...TTCAG|GGT 0 1 64.63
168077758 AT-AC 0 64.5753239622281 212 rna-XM_018650209.1 30001178 5 1472870 1473081 Pyrus x bretschneideri 225117 GGT|ATGTCTTTCT...TTTACTTTGCTT/ACTTTGCTTATT...CATAC|GAA 0 1 72.918
168077759 GT-AG 0 0.0004580691349061 144 rna-XM_018650209.1 30001178 6 1472490 1472633 Pyrus x bretschneideri 225117 ATA|GTAAGTTTCA...TCAATTTTATTT/ATCAATTTTATT...TTCAG|CGG 2 1 82.101
168077760 GT-AG 0 7.169866842804576e-05 82 rna-XM_018650209.1 30001178 7 1472257 1472338 Pyrus x bretschneideri 225117 CAT|GTAAGCATAA...CTTTTTATAACT/CTTTTTATAACT...TTTAG|GTT 0 1 87.977
168079612 GT-AG 0 2.976552822025383e-05 12569 rna-XM_018650209.1 30001178 1 1476703 1489271 Pyrus x bretschneideri 225117 AAG|GTAACAATGA...GGCTTTTTGTTT/TGTTTCTGCATG...AAAAG|CAG   0 0.895

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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]);