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 = 5879299

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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
29939915 GT-AG 0 1.000000099473604e-05 77 rna-XM_014938145.1 5879299 2 650117 650193 Calidris pugnax 198806 GAG|GTAGGAGAGT...GTTTTCTTCTCC/GCCCCGCTGACG...TGCAG|CTG 0 1 25.974
29939916 GT-AG 0 1.000000099473604e-05 644 rna-XM_014938145.1 5879299 3 649387 650030 Calidris pugnax 198806 GCG|GTACAGGCTG...TTCGTCTTGTCT/ACGGGATTGACA...CACAG|GGG 2 1 36.128
29939917 GT-AG 0 0.0003906669060607 302 rna-XM_014938145.1 5879299 4 649030 649331 Calidris pugnax 198806 CTG|GTATGTAGGT...CTTTTCTTGCCT/CTCGTGGCCACG...TGCAG|GGG 0 1 42.621
29939918 GT-AG 0 1.000000099473604e-05 133 rna-XM_014938145.1 5879299 5 648792 648924 Calidris pugnax 198806 CAG|GTGCGTGTGC...GCCCCCCTGACC/GCCCCCCTGACC...TGCAG|AAG 0 1 55.018
29939919 GT-AG 0 1.000000099473604e-05 76 rna-XM_014938145.1 5879299 6 648599 648674 Calidris pugnax 198806 GAG|GTGGGAAGGT...CTGCTCTTGTCT/CGGGGTCTGACC...CGCAG|CTG 0 1 68.831
29939920 GT-AG 0 1.000000099473604e-05 229 rna-XM_014938145.1 5879299 7 648232 648460 Calidris pugnax 198806 CAG|GTAGGTACTG...GGTACCCCAGCC/GTTCGGCTCACC...CACAG|TGG 0 1 85.124
29939921 GT-AG 0 1.000000099473604e-05 87 rna-XM_014938145.1 5879299 8 648042 648128 Calidris pugnax 198806 TGG|GTGAGAGCCG...TCTGCCGTGACC/TCTGCCGTGACC...TCCAG|GGA 1 1 97.285
29939958 GT-AG 0 1.000000099473604e-05 280 rna-XM_014938145.1 5879299 1 650266 650545 Calidris pugnax 198806 AAG|GTGACTCTCC...GAGCCCGTGCCC/TGCCCGCTGAGC...CACAG|ATG   0 17.473

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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]);