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)

9 rows where transcript_id = 32796567

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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
183367322 GT-AG 0 1.000000099473604e-05 1253 rna-XM_034745244.1 32796567 1 30627888 30629140 Setaria viridis 4556 GGG|GTAAGCACTA...TTGGTTTTGTTT/TGGGTACTGATT...ACCAG|GGC 1 1 25.926
183367323 GT-AG 0 1.000000099473604e-05 79 rna-XM_034745244.1 32796567 2 30627329 30627407 Setaria viridis 4556 TAG|GTAAAGTAGA...TTGTGTTTACCT/TTTGTGTTTACC...TGCAG|GTG 1 1 35.588
183367324 GT-AG 0 1.000000099473604e-05 756 rna-XM_034745244.1 32796567 3 30626271 30627026 Setaria viridis 4556 GAG|GTGAGATTTC...TCTTTTTTATTG/CTCTTTTTTATT...AGCAG|GTT 0 1 41.667
183367325 GT-AG 0 5.125204758348265e-05 83 rna-XM_034745244.1 32796567 4 30625501 30625583 Setaria viridis 4556 AGG|GTAAGATTTA...TTTCCTTTAATT/TTTCCTTTAATT...CTCAG|TCA 0 1 55.495
183367326 GT-AG 0 0.0009797919973732 871 rna-XM_034745244.1 32796567 5 30624351 30625221 Setaria viridis 4556 CCA|GTAAGTTTGC...TTTATTTTAATT/TTTATTTTAATT...TGCAG|GTT 0 1 61.111
183367327 GT-AG 0 0.0549085031323842 91 rna-XM_034745244.1 32796567 6 30624098 30624188 Setaria viridis 4556 GCG|GTATGTTTAG...ATCTTCTTACTT/CATCTTCTTACT...CTAAG|GTT 0 1 64.372
183367328 GT-AG 0 0.0050975610712442 88 rna-XM_034745244.1 32796567 7 30623074 30623161 Setaria viridis 4556 AGG|GTATTTATCT...ATTTCCTCATTT/GATTTCCTCATT...TGTAG|TCT 0 1 83.213
183367329 GT-AG 0 1.000000099473604e-05 1517 rna-XM_034745244.1 32796567 8 30621341 30622857 Setaria viridis 4556 AAG|GTAGAAGTTC...CCAATATTATTT/AAACAACTAATG...TCCAG|AAA 0 1 87.56
183367330 GT-AG 0 2.6704917614470137e-05 568 rna-XM_034745244.1 32796567 9 30620512 30621079 Setaria viridis 4556 CAG|GTTTTCCACC...GTTTACTGATCT/TGTTTACTGATC...TTCAG|CAA 0 1 92.814

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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]);