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 = 30001223

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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
168078097 GT-AG 0 0.0003348658471438 3801 rna-XM_009342969.2 30001223 2 277891 281691 Pyrus x bretschneideri 225117 CTG|GTATGTTAAG...CTACTCTTCTAT/TATAAATTTAAA...AACAG|ATT 1 1 28.748
168078098 GT-AG 0 0.0079141296145652 80 rna-XM_009342969.2 30001223 3 281766 281845 Pyrus x bretschneideri 225117 ACG|GTATTCACAT...TACATTTTACTA/ATTTTACTAAGT...TCAAG|GTT 0 1 32.011
168078099 GT-AG 0 0.0014696433002856 142 rna-XM_009342969.2 30001223 4 281963 282104 Pyrus x bretschneideri 225117 TCT|GTAAGCATCA...TTTTCATTGATA/TTAATTTTCATT...TTCAG|GTC 0 1 37.169
168078100 GT-AG 0 0.000438420895459 356 rna-XM_009342969.2 30001223 5 282912 283267 Pyrus x bretschneideri 225117 GAG|GTATGTGGTC...TTTTTTTTAATG/TTTTTTTTAATG...TGTAG|GAG 0 1 72.751
168078101 GT-AG 0 11.33894645211688 168 rna-XM_009342969.2 30001223 6 283485 283652 Pyrus x bretschneideri 225117 CTG|GTATCCTCTC...GTTTCTTTCAAT/GTTTCTTTCAAT...CCTAG|GTG 1 1 82.319
168079623 GT-AG 0 6.051475610010019e-05 182 rna-XM_009342969.2 30001223 1 277359 277540 Pyrus x bretschneideri 225117 ATG|GTAGGTTTTC...GGGTTGTTATTT/AAAAAGCTTATT...TTCAG|GTA   0 15.873

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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]);