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 = 30293551

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
169297712 GT-AG 0 1.000000099473604e-05 325 rna-RIMITATOR_LOCUS241 30293551 1 50147689 50148013 Ranitomeya imitator 111125 TCC|GTGAGCAAGG...CAGGTCTTGCCA/GATGGACTCAGT...TGCAG|CTG 1 1 7.239
169297713 GT-AG 0 1.000000099473604e-05 167 rna-RIMITATOR_LOCUS241 30293551 2 50147381 50147547 Ranitomeya imitator 111125 CGG|GTGGGTATGA...CCATCTTTATTT/GAGGTTCTGAAT...TACAG|TGC 1 1 15.47
169297714 GT-AG 0 1.000000099473604e-05 2430 rna-RIMITATOR_LOCUS241 30293551 3 50144807 50147236 Ranitomeya imitator 111125 AAG|GTAAAGAAGG...TGTTCTTTACCT/CTGTTCTTTACC...ACTAG|GGA 1 1 23.876
169297715 GT-AG 0 1.000000099473604e-05 87 rna-RIMITATOR_LOCUS241 30293551 4 50144538 50144624 Ranitomeya imitator 111125 GGG|GTGAGTATGC...TGGACCTTTCCC/TGTGATCTGAGT...CTCAG|GTA 0 1 34.501
169297716 GT-AG 0 1.7076987442697125e-05 1733 rna-RIMITATOR_LOCUS241 30293551 5 50142721 50144453 Ranitomeya imitator 111125 CAG|GTACTGTTGG...GCGGCCTCATCC/GGCGGCCTCATC...CACAG|GTG 0 1 39.405
169297717 GT-AG 0 1.000000099473604e-05 2070 rna-RIMITATOR_LOCUS241 30293551 6 50140404 50142473 Ranitomeya imitator 111125 TAG|GTGAGCACGC...TGTTTCTTATCT/TTGTTTCTTATC...TGCAG|GGG 1 1 53.824
169297718 GT-AG 0 8.681727858735625e-05 4267 rna-RIMITATOR_LOCUS241 30293551 7 50135850 50140116 Ranitomeya imitator 111125 CGG|GTAAGCTTCA...TGTCTCTGAGAC/CTGAGACTGATG...TGCAG|ATT 0 1 70.578
169297719 GT-AG 0 0.0003211425871536 1815 rna-RIMITATOR_LOCUS241 30293551 8 50133887 50135701 Ranitomeya imitator 111125 CAG|GTATGTCAGC...TCAATCTTAACA/TCAATCTTAACA...CACAG|GAG 1 1 79.218

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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]);