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 = 22607850

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
122606240 GT-AG 0 1.000000099473604e-05 1928 rna-XM_021211293.1 22607850 1 2537923 2539850 Mus pahari 10093 AAG|GTAAAGCATG...TAAGCCTCAGTT/CTAAGCCTCAGT...CTCAG|AAA 0 1 0.93
122606241 GT-AG 0 1.000000099473604e-05 771 rna-XM_021211293.1 22607850 2 2540022 2540792 Mus pahari 10093 CTG|GTAAGGCCAC...CTGTCTTTTACT/CTGTCTTTTACT...TGCAG|GCT 0 1 3.052
122606242 GT-AG 0 1.000000099473604e-05 401 rna-XM_021211293.1 22607850 3 2543663 2544063 Mus pahari 10093 GCA|GTGAGTTGCT...CTCTCCTTCACT/CTCTCCTTCACT...TGCAG|GCA 2 1 38.655
122606243 GT-AG 0 3.41197903217521e-05 369 rna-XM_021211293.1 22607850 4 2544336 2544704 Mus pahari 10093 GGG|GTAAGTATGA...CATATCTTGATT/CATATCTTGATT...AGCAG|CCC 1 1 42.03
122606244 GC-AG 0 1.000000099473604e-05 177 rna-XM_021211293.1 22607850 5 2545030 2545206 Mus pahari 10093 TGT|GCCAGAGGAA...AATGTCTACTCG/CCGGGTAGGATT...GACAG|TGA 2 1 46.061
122606245 GC-AG 0 1.000000099473604e-05 501 rna-XM_021211293.1 22607850 6 2545444 2545944 Mus pahari 10093 CTG|GCAAGAGGGA...GCTGTCTTGGGT/GGAAGAGTTATT...CACAG|GGC 2 1 49.001
122606246 GT-AG 0 1.000000099473604e-05 242 rna-XM_021211293.1 22607850 7 2548133 2548374 Mus pahari 10093 GAA|GTGGAAGAGG...AGATTCTTCCTG/AAAGGCTTCATG...AAAAG|TTT 0 1 76.144
122606247 GT-AG 0 1.000000099473604e-05 375 rna-XM_021211293.1 22607850 8 2548460 2548834 Mus pahari 10093 AGA|GTTTGTCTGA...GAGGAGATAGAA/AGGAGATAGAAA...GGCAG|GAT 1 1 77.199

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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]);