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 = 8322085

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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
44702322 GT-AG 0 1.000000099473604e-05 325 rna-XM_006830858.1 8322085 1 51873032 51873356 Chrysochloris asiatica 185453 CAG|GTAGAGGAGG...CACACCTCACCC/ACACACCTCACC...CACAG|ATA 2 1 16.005
44702323 GT-AG 0 1.000000099473604e-05 1363 rna-XM_006830858.1 8322085 2 51871513 51872875 Chrysochloris asiatica 185453 GAT|GTGAGAGAGC...TGCTCCTCAGCA/ATGCTCCTCAGC...TGCAG|GAA 2 1 26.323
44702324 GT-AG 0 1.000000099473604e-05 103 rna-XM_006830858.1 8322085 3 51871210 51871312 Chrysochloris asiatica 185453 AAG|GTAGGGTAGC...TTGGCCTTGGTG/CTTGAATTGAGT...TGCAG|CCA 1 1 39.55
44702325 GT-AG 0 1.000000099473604e-05 182 rna-XM_006830858.1 8322085 4 51870824 51871005 Chrysochloris asiatica 185453 ATA|GTAAGGCTTA...CAGGCCTGGATT/CTTCCTTGTACC...CACAG|CCA 1 1 53.042
44702326 GT-AG 0 1.7464232989969685e-05 1160 rna-XM_006830858.1 8322085 5 51869509 51870668 Chrysochloris asiatica 185453 ACG|GTCCGCCAAC...GGAATCTTACCT/TGGAATCTTACC...TGCAG|ACC 0 1 63.294
44702327 GT-AG 0 1.000000099473604e-05 377 rna-XM_006830858.1 8322085 6 51868965 51869341 Chrysochloris asiatica 185453 TCG|GTGGGTGTCC...GGGCTCTGGGCT/GGCTCTCCCACT...CCCAG|GCT 2 1 74.339
44702328 GT-AG 0 1.000000099473604e-05 89 rna-XM_006830858.1 8322085 7 51868797 51868885 Chrysochloris asiatica 185453 GGG|GTGAGTGATG...CCCTCCTTGAGA/AGCCAGCTGACC...CACAG|ACA 0 1 79.563
44702329 GT-AG 0 1.000000099473604e-05 196 rna-XM_006830858.1 8322085 8 51868406 51868601 Chrysochloris asiatica 185453 CAG|GTGAGTGATG...GAAGCTTGGATT/GAAGCTTGGATT...CCTAG|GTG 0 1 92.46

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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]);