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 = 2121816

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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
11621297 GT-AG 0 0.0006448937247109 85 rna-XM_009822546.1 2121816 1 141981 142065 Aphanomyces astaci 112090 AAA|GTATGTATAC...GGTGTTGTGATA/ATGACGCTGATG...TGTAG|CCT 0 1 39.042
11621298 GT-AG 0 0.0001129197944026 107 rna-XM_009822546.1 2121816 2 142150 142256 Aphanomyces astaci 112090 GAG|GTAACTAACT...CCGTGTTTATCG/GCCGTGTTTATC...ACTAG|TAT 0 1 41.621
11621299 GT-AG 0 0.0001488873127616 212 rna-XM_009822546.1 2121816 3 142302 142513 Aphanomyces astaci 112090 GGG|GTACGTTCGT...GGATTCGTATCT/TCGTATCTAATA...GGTAG|CTG 0 1 43.002
11621300 GT-AG 0 1.000000099473604e-05 59 rna-XM_009822546.1 2121816 4 142667 142725 Aphanomyces astaci 112090 CAA|GTAGGGCAAA...GTTTCCATATCC/TGTGTTTTCATG...GTTAG|ATC 0 1 47.698
11621301 GT-AG 0 0.0025199627616715 57 rna-XM_009822546.1 2121816 5 143632 143688 Aphanomyces astaci 112090 CAA|GTATGTCTTC...TATTTTTTGTTG/CCAAGTTTGAAC...TGTAG|GAA 0 1 75.506
11621302 GT-AG 0 0.0008197469282437 82 rna-XM_009822546.1 2121816 6 144013 144094 Aphanomyces astaci 112090 CAA|GTATATATAT...TATGACTGAATG/ATATGACTGAAT...CCTAG|GGA 0 1 85.451
11621303 GT-AG 0 1.000000099473604e-05 86 rna-XM_009822546.1 2121816 7 144316 144401 Aphanomyces astaci 112090 CCG|GTAATACCGT...GGCGTCTGGATA/CTAATACTAATA...AATAG|GGC 2 1 92.234

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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]);