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)

7 rows where transcript_id = 26158191

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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
144760228 GG-AG 0 1.1778427077646622e-05 349 rna-XM_013279178.1 26158191 1 910920 911268 Papilio polytes 76194 ATT|GGTAATATCA...GTAATTTTAAAT/TTTAAATTTACA...TCCAG|ACT 2 1 5.227
144760229 GT-AG 0 0.0028578504667079 980 rna-XM_013279178.1 26158191 2 909763 910742 Papilio polytes 76194 ATG|GTATGTATTA...CTTACTTTATTA/ATTGCATTTATT...TACAG|GAT 2 1 17.244
144760230 GT-AG 0 1.000000099473604e-05 687 rna-XM_013279178.1 26158191 3 908866 909552 Papilio polytes 76194 AAA|GTAAGTATGA...ACTGTTTTAAAG/GATTTTTTTACA...TCCAG|GTT 2 1 31.5
144760231 GT-AG 0 1.000000099473604e-05 711 rna-XM_013279178.1 26158191 4 907938 908648 Papilio polytes 76194 CTG|GTGAGTTATT...ATTTTTTTAAAA/AAAATTTTTACT...CCCAG|AAT 0 1 46.232
144760232 GT-AG 0 1.000000099473604e-05 2302 rna-XM_013279178.1 26158191 5 905457 907758 Papilio polytes 76194 AAG|GTAAGTAAAT...TTTACTTTCATA/TTTACTTTCATA...TTCAG|ACA 2 1 58.384
144760233 GT-AG 0 1.000000099473604e-05 846 rna-XM_013279178.1 26158191 6 904340 905185 Papilio polytes 76194 TTG|GTGGGTTGTC...TGTTTTTTAGTA/CTATTTCTAATA...GACAG|GTA 0 1 76.782
144760234 GT-AG 0 2.782089450101848e-05 308 rna-XM_013279178.1 26158191 7 903928 904235 Papilio polytes 76194 TAG|GTAAGTTTCA...GCGCTTTTAACA/TAGATTTTAATC...TTCAG|GAC 2 1 83.842

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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]);