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)

8 rows where transcript_id = 27699067

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
153876067 GT-AG 0 4.584951780982237e-05 100 rna-XM_009519345.1 27699067 1 12254953 12255052 Phytophthora sojae 67593 GGA|GTGCGTTCCA...TTCGCCTTCATT/TATGGACTAATC...GGCAG|GTA 2 1 0.637
153876068 GT-AG 0 3.943741511020096e-05 82 rna-XM_009519345.1 27699067 2 12255439 12255520 Phytophthora sojae 67593 CAG|GTACAATACC...TTTTTTTTATTG/GTTTTTTTTATT...AGCAG|GGT 1 1 8.318
153876069 GT-AG 0 0.0007020381263755 109 rna-XM_009519345.1 27699067 3 12258287 12258395 Phytophthora sojae 67593 TGA|GTACGTTGAG...GTCTTCTTCGTA/ACCCTTCTAACT...TGTAG|TGT 1 1 63.363
153876070 GT-AG 0 1.000000099473604e-05 79 rna-XM_009519345.1 27699067 4 12258780 12258858 Phytophthora sojae 67593 AAG|GTACGTACAT...CGTTCCTGAATT/ACGTTCCTGAAT...GCTAG|GCG 1 1 71.005
153876071 GT-AG 0 0.0002944337001 71 rna-XM_009519345.1 27699067 5 12258934 12259004 Phytophthora sojae 67593 CAG|GTACTGTATC...TGGTCCTTATCT/GTGGTCCTTATC...CCCAG|CAC 1 1 72.498
153876072 GT-AG 0 0.0048175037736056 455 rna-XM_009519345.1 27699067 6 12259272 12259726 Phytophthora sojae 67593 TCG|GTACACACTA...CTTTCGTTGAAC/CTTTCGTTGAAC...GTGAG|TGT 1 1 77.811
153876073 GT-AG 0 5.3495859294353306e-05 39 rna-XM_009519345.1 27699067 7 12259768 12259806 Phytophthora sojae 67593 TCA|GTTCATTAAT...TTTGCGCTGACA/TTTGCGCTGACA...GCGAG|CGT 0 1 78.627
153876074 GT-AG 0 1.000000099473604e-05 771 rna-XM_009519345.1 27699067 8 12260337 12261107 Phytophthora sojae 67593 GAT|GTGAAGCCAG...GAGACCGTAAAA/GGGCAAGTAACC...GGAAG|GCA 2 1 89.174

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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]);