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)

7 rows where transcript_id = 410647

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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
2418979 GT-AG 0 1.000000099473604e-05 809 rna-XM_015903753.1 410647 2 611238 612046 Acropora digitifera 70779 AAG|GTAAGCAAGT...TTTTCTTTCATC/TTTTCTTTCATC...TTCAG|ATT 1 1 10.338
2418980 GT-AG 0 1.000000099473604e-05 894 rna-XM_015903753.1 410647 3 612077 612970 Acropora digitifera 70779 GTG|GTAAGTCACT...TATTTCTTGTCT/TCGAAGTTAAAT...GTCAG|GAC 1 1 12.185
2418981 GT-AG 0 1.000000099473604e-05 711 rna-XM_015903753.1 410647 4 613285 613995 Acropora digitifera 70779 GAG|GTAAGTGCAA...GATATCTTACAG/AGATATCTTACA...TCTAG|ATC 0 1 31.508
2418982 GT-AG 0 7.597315667529233e-05 456 rna-XM_015903753.1 410647 5 614089 614544 Acropora digitifera 70779 AAG|GTAACTGACT...TGTTTCTTTTTT/TACTTGTTGATG...TCTAG|ATT 0 1 37.231
2418983 GT-AG 0 1.000000099473604e-05 854 rna-XM_015903753.1 410647 6 614609 615462 Acropora digitifera 70779 CAG|GTAAGAAACC...TATTCTTTTGCT/TTAATGGTCATA...TTTAG|ACA 1 1 41.169
2418984 GT-AG 0 1.000000099473604e-05 24588 rna-XM_015903753.1 410647 7 615624 640211 Acropora digitifera 70779 CAG|GTGAAATCTC...TTTTTTTTATTT/TTATTTCTCATT...TACAG|ATG 0 1 51.077
2419671 GT-AG 0 1.000000099473604e-05 3374 rna-XM_015903753.1 410647 1 607772 611145 Acropora digitifera 70779 CAG|GTGAGAACTG...GTTATTTTAACA/CACTTATTCACT...TGTAG|GAA   0 6.4

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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]);