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 = 12758652

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
67905307 GT-AG 0 1.000000099473604e-05 669 rna-XM_022894498.1 12758652 1 9846004 9846672 Durio zibethinus 66656 AAG|GTAAAAAATT...TGAGTCTTAACC/AAACTTCTTATT...CGCAG|CTG 1 1 12.935
67905308 GT-AG 0 1.000000099473604e-05 129 rna-XM_022894498.1 12758652 2 9845099 9845227 Durio zibethinus 66656 AAG|GTAGGGCTTT...TATTTTTTGAAT/TTTTTCTTCAAT...TTAAG|ATT 0 1 52.607
67905309 GT-AG 0 0.7535156235023784 103 rna-XM_022894498.1 12758652 3 9844918 9845020 Durio zibethinus 66656 GCA|GTATGTTTCA...CATTCATTAATT/CCTGCATTCATT...TCCAG|TTG 0 1 56.595
67905310 GT-AG 0 0.0024213105969688 643 rna-XM_022894498.1 12758652 4 9844185 9844827 Durio zibethinus 66656 CAG|GTATTTATTT...TTTTTTTTTATT/TTTTTTTTTATT...TCCAG|TCG 0 1 61.196
67905311 GT-AG 0 0.0102050866414944 477 rna-XM_022894498.1 12758652 5 9843408 9843884 Durio zibethinus 66656 CAG|GTAGCATTTT...TCAACCTTAAAT/GTTATATTAACT...TTCAG|ATG 0 1 76.534
67905312 GC-AG 0 1.000000099473604e-05 161 rna-XM_022894498.1 12758652 6 9843016 9843176 Durio zibethinus 66656 GAG|GCATGTAATA...TTCTTTTTATTC/TTTTGTTTTACT...TGCAG|ATG 0 1 88.344

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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]);