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 = 5879286

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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
29939837 GT-AG 0 4.9566713666131175e-05 916 rna-XM_014936403.1 5879286 1 618082 618997 Calidris pugnax 198806 TCC|GTACTGCTTG...GGGCTCTGAGGT/TGGGCTCTGAGG...GGCAG|GAG 2 1 0.853
29939838 GT-AG 0 1.000000099473604e-05 2941 rna-XM_014936403.1 5879286 2 614996 617936 Calidris pugnax 198806 AAG|GTAAGTGTTG...TCTGCTGTATCC/CCCCCTGTGATG...CACAG|ATC 0 1 12.093
29939839 GT-AG 0 1.000000099473604e-05 294 rna-XM_014936403.1 5879286 3 614594 614887 Calidris pugnax 198806 GAA|GTGAGTGGCT...TTCACCTCAACC/TTGTTGTTCACC...CCCAG|GAA 0 1 20.465
29939840 GT-AG 0 1.000000099473604e-05 657 rna-XM_014936403.1 5879286 4 613830 614486 Calidris pugnax 198806 TGG|GTAAGTGGAG...GTGTCTGTGCCC/CCTCTCCCCACC...CGCAG|GCA 2 1 28.76
29939841 GT-AG 0 1.000000099473604e-05 244 rna-XM_014936403.1 5879286 5 613471 613714 Calidris pugnax 198806 GAG|GTACGAGCCA...TGTCCCTTGGCT/CGGGTGCTCACC...TGCAG|CAA 0 1 37.674
29939842 GT-AG 0 1.000000099473604e-05 293 rna-XM_014936403.1 5879286 6 613112 613404 Calidris pugnax 198806 CTG|GTGAGTGCTG...GGACTCTCAACG/AGGGAGCTGATC...TTCAG|GAG 0 1 42.791
29939843 GT-AG 0 1.000000099473604e-05 317 rna-XM_014936403.1 5879286 7 612605 612921 Calidris pugnax 198806 AAG|GTAGAAGCTC...ACTGCCTTGCCT/CCGGCACTCACT...TGCAG|GAG 1 1 57.519
29939844 GT-AG 0 1.000000099473604e-05 226 rna-XM_014936403.1 5879286 8 612224 612449 Calidris pugnax 198806 GAG|GTGAGGTGCT...GAGATGCTGATG/GAGATGCTGATG...CACAG|GTC 0 1 69.535

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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]);