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 = 18699392

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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
99736175 GT-AG 0 0.0033945669533341 1282 rna-XM_018960990.2 18699392 1 6311406 6312687 Juglans regia 51240 CAG|GTCTCGTTTT...AAACCTTTCTCT/CCTGGTCTCAAA...TGCAG|GCA 0 1 1.576
99736176 GT-AG 0 1.000000099473604e-05 1173 rna-XM_018960990.2 18699392 2 6312775 6313947 Juglans regia 51240 ACG|GTGTGTACAT...AAGACTTTGATT/AAGACTTTGATT...TTCAG|GAT 0 1 4.263
99736177 GT-AG 0 0.0002374673620136 102 rna-XM_018960990.2 18699392 3 6314032 6314133 Juglans regia 51240 CAG|GTATGTAAAA...TCTCCTTTATTA/TCCTTTATTATT...CTCAG|ATA 0 1 6.858
99736178 GT-AG 0 1.6297526975066835e-05 105 rna-XM_018960990.2 18699392 4 6314215 6314319 Juglans regia 51240 TTG|GTAATTAATC...TTATCCTTGTTT/AATAGCTTCACT...TCTAG|ATA 0 1 9.361
99736179 GT-AG 0 1.000000099473604e-05 1642 rna-XM_018960990.2 18699392 5 6314515 6316156 Juglans regia 51240 CAG|GTTTTGAATA...TCTCTCATGACT/ACCTCTCTCATG...TGAAG|GTG 0 1 15.385
99736180 GT-AG 0 1.000000099473604e-05 782 rna-XM_018960990.2 18699392 6 6318242 6319023 Juglans regia 51240 GAG|GTAATTGCTT...CAAGCTTTGATG/TCTTTCTTTACA...TATAG|GCA 0 1 79.796
99736181 GT-AG 0 7.801847185573634e-05 226 rna-XM_018960990.2 18699392 7 6319171 6319396 Juglans regia 51240 AGG|GTAAATTTTC...AAGCCCTTGCTC/ATTGTTCTAATT...TGCAG|CTT 0 1 84.337
99736182 GT-AG 0 0.5879020959384265 348 rna-XM_018960990.2 18699392 8 6319801 6320148 Juglans regia 51240 CAG|GTAACCTTTT...TGAGCTTTAATT/CTTTATCTGAGC...TGCAG|CCG 2 1 96.818

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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]);