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 = 15495837

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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
83763199 GT-AG 0 5.4049700740940965e-05 298 rna-XM_006573706.4 15495837 1 55918148 55918445 Glycine max 3847 CAG|GTCACTTTCA...TTGGTTTGGAAT/CATTTGGTGATG...TTCAG|GTG 0 1 2.383
83763200 GT-AG 0 0.0008517702619252 81 rna-XM_006573706.4 15495837 2 55918647 55918727 Glycine max 3847 ACG|GTATGATTTT...TTCTTTTTGTCA/TGTGATCTAATT...TGCAG|GGG 0 1 8.524
83763201 GT-AG 0 1.000000099473604e-05 169 rna-XM_006573706.4 15495837 3 55918851 55919019 Glycine max 3847 CAT|GTTAGTATTT...TGGTGCTTAACA/GTAAATTTTATT...AACAG|GTA 0 1 12.282
83763202 GT-AG 0 1.000000099473604e-05 106 rna-XM_006573706.4 15495837 4 55919058 55919163 Glycine max 3847 AAG|GTACAAAGGG...CAGTTTTTGATG/CAGTTTTTGATG...TGCAG|AGA 2 1 13.443
83763203 GT-AG 0 0.000222864048901 297 rna-XM_006573706.4 15495837 5 55919273 55919569 Glycine max 3847 GAA|GTATGAATTT...ATTTCTTTTTTT/ACATGATTCATC...TGCAG|GAT 0 1 16.774
83763204 GT-AG 0 1.000000099473604e-05 190 rna-XM_006573706.4 15495837 6 55921847 55922036 Glycine max 3847 GAG|GTAAGGTTTC...AGCATGTTAATA/CTTGTGGTAATT...GGCAG|GGA 0 1 86.343
83763205 GT-AG 0 0.000216769847067 275 rna-XM_006573706.4 15495837 7 55922175 55922449 Glycine max 3847 AAG|GTATAATCAT...AATTACTTATCT/AAATTACTTATC...AACAG|GTG 0 1 90.559
83763206 GT-AG 0 1.000000099473604e-05 181 rna-XM_006573706.4 15495837 8 55922527 55922707 Glycine max 3847 GAG|GTCTGAATAC...CAGTTATTAATT/CAGTTATTAATT...GGCAG|TAA 2 1 92.912

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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]);