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 = 20781841

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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
111342168 GT-AG 0 1.000000099473604e-05 1127 rna-XM_021765780.2 20781841 1 35255099 35256225 Manihot esculenta 3983 CAG|GTGATTTATT...TTGTTTTTATTT/GTTGTTTTTATT...TGCAG|GAT 0 1 20.132
111342169 GT-AG 0 3.895121293913524e-05 89 rna-XM_021765780.2 20781841 2 35253457 35253545 Manihot esculenta 3983 CAG|GTAATTCCTG...GTGGCCTTGACA/TATTTAGTAATC...AGCAG|TGC 2 1 69.061
111342170 GT-AG 0 0.0026767260631775 86 rna-XM_021765780.2 20781841 3 35253229 35253314 Manihot esculenta 3983 AAG|GTATGTTATC...TTCATCTTACTG/GTTTTATTCATC...TACAG|TTC 0 1 73.535
111342171 GT-AG 0 1.000000099473604e-05 312 rna-XM_021765780.2 20781841 4 35252809 35253120 Manihot esculenta 3983 AAG|GTACTACTTT...GTAACTTTGGCT/CAGGATTTGATT...TTCAG|GCA 0 1 76.938
111342172 GT-AG 0 2.2515860616322727e-05 83 rna-XM_021765780.2 20781841 5 35252513 35252595 Manihot esculenta 3983 CAG|GTTTCAGAAA...AAACTTTTATTG/TTATTGCTTATT...AACAG|AGG 0 1 83.648
111342173 GT-AG 0 1.000000099473604e-05 808 rna-XM_021765780.2 20781841 6 35251594 35252401 Manihot esculenta 3983 CAG|GTTGGTATAC...ATTGCTTTGATT/ATTGCTTTGATT...AACAG|CAT 0 1 87.146
111342174 GT-AG 0 4.893631622154237e-05 169 rna-XM_021765780.2 20781841 7 35251230 35251398 Manihot esculenta 3983 CAG|GTTTGCAACT...CTCTCCTTTTCC/TTCCCTTCTATT...TCTAG|GCA 0 1 93.289
111342175 GT-AG 0 0.2254390557226068 119 rna-XM_021765780.2 20781841 8 35250936 35251054 Manihot esculenta 3983 GGG|GTATGCTTTC...AGTTTTGTAACT/AGTTTTGTAACT...TGCAG|AAA 1 1 98.803

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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]);