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 = 27592243

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
153480572 GT-AG 0 1.000000099473604e-05 230 rna-XM_024527121.1 27592243 2 21952327 21952556 Physcomitrium patens 3218 ATG|GTGAGCTTTC...AAGATTTTGAAC/AAGATTTTGAAC...TGCAG|GAG 1 1 4.196
153480573 GT-AG 0 6.0314712931722405e-05 167 rna-XM_024527121.1 27592243 3 21952122 21952288 Physcomitrium patens 3218 TTG|GTAAATTCGT...GTTTTCTGAACG/AGTTTTCTGAAC...GAAAG|CAG 0 1 4.814
153480574 GT-AG 0 1.3368169926205571e-05 309 rna-XM_024527121.1 27592243 4 21948229 21948537 Physcomitrium patens 3218 CAG|GTAATTCTTC...GTTTTCATGACC/AAGGTTTTCATG...ACCAG|AGG 2 1 63.1
153480575 GT-AG 0 1.000000099473604e-05 176 rna-XM_024527121.1 27592243 5 21947053 21947228 Physcomitrium patens 3218 AAG|GTGATAACAA...TGTTTCTTTGTA/GTTTCACTAACT...TTTAG|ATG 0 1 79.362
153480576 GT-AG 0 2.1316516155346143e-05 222 rna-XM_024527121.1 27592243 6 21946611 21946832 Physcomitrium patens 3218 AAG|GTGTGCATGT...TGGTTTTTTTCT/ATCTGGTTGACA...TGCAG|ATG 1 1 82.94
153487725 GT-AG 0 1.000000099473604e-05 987 rna-XM_024527121.1 27592243 1 21952816 21953802 Physcomitrium patens 3218 CAG|GTGATGCGAC...CTCTTGTTATTA/CTTGTTATTACA...CGCAG|GTG   0 2.911

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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]);