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 = 15088585

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Suggested facets: score, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
81573086 GT-AG 0 3.853766274655624e-05 779 rna-XM_009809018.1 15088585 2 8496 9274 Gavia stellata 37040 TTC|GTAAGTATTT...GTTGTTTTATGC/TTTATGCTGACC...GACAG|CTG 0 1 17.49
81573087 GT-AG 0 0.0001115110452212 5548 rna-XM_009809018.1 15088585 3 9470 15017 Gavia stellata 37040 TTT|GTAAGTGTCC...GTTACTTTATTT/ATTTTTTTCATC...TTCAG|TTC 0 1 42.205
81573088 GT-AG 0 1.827669411229521e-05 6200 rna-XM_009809018.1 15088585 4 15093 21292 Gavia stellata 37040 AAC|GTAAGTATCC...GTAACCTTTGCG/CTGGCAGTAACC...TTCAG|CTG 0 1 51.711
81573089 GT-AG 0 2.888263053596437e-05 966 rna-XM_009809018.1 15088585 5 21392 22357 Gavia stellata 37040 ACA|GTAAGTCATG...TCTTCCTTTCTT/CAAAGTGTCAAC...CCTAG|TTT 0 1 64.259
81573090 GT-AG 0 1.000000099473604e-05 2631 rna-XM_009809018.1 15088585 6 22538 25168 Gavia stellata 37040 CAG|GTAAGGGAAG...CATGTTTTGTCC/GTCTGTCTCACC...CCTAG|GGC 0 1 87.072
81573091 GT-AG 0 1.000000099473604e-05 5885 rna-XM_009809018.1 15088585 1 2519 8403 Gavia stellata 37040 AAG|GTGAGTCTTG...CCTCCAGTAAAA/AGTGTGCTAAGG...TGCAG|GAA   0 9.506

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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]);