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 = 2121784

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Suggested facets: dinucleotide_pair, score, length, 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
11621020 GT-AG 0 0.0007370077931484 53 rna-XM_009823716.1 2121784 1 2338921 2338973 Aphanomyces astaci 112090 TAG|GTAACTACCC...GTCTCCCTAATA/GTCTCCCTAATA...GGTAG|CGC 1 1 8.017
11621021 GT-AG 0 1.000000099473604e-05 56 rna-XM_009823716.1 2121784 2 2338818 2338873 Aphanomyces astaci 112090 AAG|GTACGACTTG...GGTTGTTTGAAA/GGTTGTTTGAAA...TGTAG|TTT 0 1 8.776
11621022 GT-AG 0 0.0001200804299069 53 rna-XM_009823716.1 2121784 3 2338029 2338081 Aphanomyces astaci 112090 ACG|GTACATCCGT...CCGTCCTGGATT/TGGATTGTAACT...TGTAG|CTA 1 1 20.672
11621023 GT-AG 0 1.000000099473604e-05 58 rna-XM_009823716.1 2121784 4 2337884 2337941 Aphanomyces astaci 112090 ACG|GTTTGGAGCA...ATGTCCTTACAA/CATGTCCTTACA...TACAG|CAT 1 1 22.079
11621024 GT-AG 0 4.599147680708223e-05 47 rna-XM_009823716.1 2121784 5 2337776 2337822 Aphanomyces astaci 112090 TGG|GTACATGTCC...GTGTTATTACTG/AGTGTTATTACT...AGTAG|GAT 2 1 23.064
11621025 GT-AG 0 1.4391842446243807e-05 46 rna-XM_009823716.1 2121784 6 2337510 2337555 Aphanomyces astaci 112090 GAG|GTACGCCACC...CGTTGGTTGACT/CGTTGGTTGACT...GGTAG|GTG 0 1 26.62
11624030 GC-AG 0 1.000000099473604e-05 156 rna-XM_009823716.1 2121784 7 2332868 2333023 Aphanomyces astaci 112090 AAG|GCAAGTTGAA...GATGTTTTGATA/GATGTTTTGATA...GCTAG|GCG   0 99.127

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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]);