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)

8 rows where transcript_id = 16807653

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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
89547364 GT-AG 0 1.000000099473604e-05 7636 rna-XM_009927970.1 16807653 1 11368 19003 Haliaeetus albicilla 8969 GAG|GTAATGCTCT...CCACCCTCAGCC/CCCCAGTTCACG...CACAG|GCT 0 1 48.393
89547365 GT-AG 0 1.000000099473604e-05 1255 rna-XM_009927970.1 16807653 2 19100 20354 Haliaeetus albicilla 8969 AAG|GTGCGTATGG...TGTGTCTTTTCT/TTATTTCTCCTG...CACAG|AAC 0 1 53.807
89547366 GT-AG 0 3.942215387254948e-05 365 rna-XM_009927970.1 16807653 3 20589 20953 Haliaeetus albicilla 8969 CAG|GTAACTGAGA...TGTTCCTCAGTA/ATGTTCCTCAGT...GGCAG|GAG 0 1 67.005
89547367 GT-AG 0 1.000000099473604e-05 3935 rna-XM_009927970.1 16807653 4 21153 25087 Haliaeetus albicilla 8969 ACG|GTAGAGTATC...GCTTCCTCCATC/CTCCATCTCACA...TCCAG|GTG 1 1 78.229
89547368 GT-AG 0 1.0444974532688712e-05 3477 rna-XM_009927970.1 16807653 5 25172 28648 Haliaeetus albicilla 8969 AAG|GTATGGCATC...ATGCTCTTGTTT/AGCCAGCTCATC...TACAG|CCA 1 1 82.967
89547369 GT-AG 0 1.000000099473604e-05 1254 rna-XM_009927970.1 16807653 6 28709 29962 Haliaeetus albicilla 8969 TTG|GTACGGGTAA...CCTCTTCTATCT/CATGGAATAACA...TCCAG|TAG 1 1 86.351
89547370 GT-AG 0 1.000000099473604e-05 1119 rna-XM_009927970.1 16807653 7 30065 31183 Haliaeetus albicilla 8969 CCG|GTACTAGGCA...TGATCTATAACA/CAGGGACTGATC...CACAG|CTT 1 1 92.104
89547371 GT-AG 0 1.000000099473604e-05 2885 rna-XM_009927970.1 16807653 8 31261 34145 Haliaeetus albicilla 8969 TTG|GTAAGAAATA...ATGCCCCAAATT/GTCAAACTCACA...TGCAG|TCA 0 1 96.447

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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]);