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)

5 rows where transcript_id = 22370807

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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
121405767 GT-AG 0 1.000000099473604e-05 135 rna-XM_024161906.1 22370807 1 1337 1471 Morus notabilis 981085 AAA|GTGATTCTAA...GGTTTCTTGTTT/CTTGTTTTCAGA...TGCAG|GTT 2 1 1.679
121405768 GT-AG 0 0.004733058664301 204 rna-XM_024161906.1 22370807 2 1015 1218 Morus notabilis 981085 GAT|GTATGTTGCC...CATTCATCATCT/TAGGCATTCATC...AGTAG|ATT 0 1 15.827
121405769 GT-AG 0 0.0001757783018492 96 rna-XM_024161906.1 22370807 3 578 673 Morus notabilis 981085 CAA|GTAAATATGG...TTTTTCTTGAAC/TAATCTTTCATT...TGCAG|ATG 2 1 56.715
121405770 GT-AG 0 1.000000099473604e-05 75 rna-XM_024161906.1 22370807 4 371 445 Morus notabilis 981085 CAA|GTAATGGCTA...TGTTTCTTATCG/CTGTTTCTTATC...CACAG|ATG 2 1 72.542
121405771 GT-AG 0 1.000000099473604e-05 128 rna-XM_024161906.1 22370807 5 144 271 Morus notabilis 981085 ATC|GTGAGTTGTT...TTATGTTTGAAT/TCTTGTTTCACA...TTCAG|GTG 2 1 84.412

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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]);