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 = 15121893

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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
81842815 GT-AG 0 1.000000099473604e-05 2365 rna-XM_015414432.1 15121893 1 1375443 1377807 Gekko japonicus 146911 GAG|GTGAGAACTG...TGCATTTTCTTC/TGTGTCTGCATT...TCCAG|ACA 1 1 1.903
81842816 AT-AC 0 0.0002631984511555 39070 rna-XM_015414432.1 15121893 3 1335248 1374317 Gekko japonicus 146911 AGC|ATCGGAAGAT...AGGGCTGCAGCC/AGCAAATCGACT...TGAAC|ACA 1 1 24.049
81842817 GT-AG 0 4.008133454042196e-05 13907 rna-XM_015414432.1 15121893 4 1320533 1334439 Gekko japonicus 146911 GAA|GTGCTTTGCT...AATGCCTCAGTT/GAATGCCTCAGT...GGCAG|ACG 2 1 40.945
81842818 GT-AG 0 1.000000099473604e-05 6194 rna-XM_015414432.1 15121893 5 1313872 1320065 Gekko japonicus 146911 CAG|GTGAGATTAT...GACCTCTGCACA/CAAAAATTCAGT...TGCAG|GAC 1 1 50.711
81842819 GT-GA 0 3.027909149854833e-05 16309 rna-XM_015414432.1 15121893 6 1297477 1313785 Gekko japonicus 146911 GAA|GTAAGTTCTT...CAAACCTCACCC/CCAAACCTCACC...CTGGA|TCC 0 1 52.509
81842820 GT-AG 0 0.0006541175760569 636 rna-XM_015414432.1 15121893 7 1296821 1297456 Gekko japonicus 146911 CAG|GTATGTTCTA...TTGATTTTGAGT/TTGATTTTGAGT...AATAG|GTT 2 1 52.928
81842821 GA-GC 0 1.000000099473604e-05 65358 rna-XM_015414432.1 15121893 8 1230444 1295801 Gekko japonicus 146911 GGG|GAAAGGACAC...AAGGTTTTAACG/AAGGTTTTAACG...TCTGC|AGA 1 1 74.237
81842822 GC-CA 0 1.000000099473604e-05 102 rna-XM_015414432.1 15121893 9 1229897 1229998 Gekko japonicus 146911 CCG|GCACCAGCGC...CTGCACTTACTG/TCTGCACTTACT...GACCA|GCA 2 1 83.542

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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]);