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)

6 rows where transcript_id = 34828650

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Suggested facets: dinucleotide_pair, score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
196137775 GT-AG 0 0.1274434258094955 235 rna-XM_025024184.1 34828650 2 19356 19590 Temnothorax curvispinosus 300111 TCG|GTATATTGTG...ATCTTTTTAATA/ATCTTTTTAATA...TTTAG|ATT 0 1 33.155
196137776 GT-AG 0 0.0001592828303028 105 rna-XM_025024184.1 34828650 3 19142 19246 Temnothorax curvispinosus 300111 ATT|GTAAGTGTCT...TTTTTCTTGAAA/ATATTTATCATA...TTCAG|CTG 1 1 41.501
196137777 GC-AG 0 1.000000099473604e-05 80 rna-XM_025024184.1 34828650 4 18865 18944 Temnothorax curvispinosus 300111 GGG|GCAAGTTCAA...AACTTATTAATA/TATATTCTGATG...TACAG|AGA 0 1 56.585
196137778 GT-AG 0 1.000000099473604e-05 103 rna-XM_025024184.1 34828650 5 18393 18495 Temnothorax curvispinosus 300111 AAA|GTAAAAATAA...CAATCTTTTGTT/ACTATATTCAAT...TATAG|GTG 0 1 84.839
196137779 GT-AG 0 1.000000099473604e-05 82 rna-XM_025024184.1 34828650 6 18225 18306 Temnothorax curvispinosus 300111 TGG|GTAAGTAGAC...TTATTTTTAAAT/TTATTTTTAAAT...TATAG|TTA 2 1 91.424
196137782 GT-AG 0 0.0042627204949148 99 rna-XM_025024184.1 34828650 1 19714 19812 Temnothorax curvispinosus 300111 AAG|GTACCTCGTA...TAATTCTAAGAG/AATAGATTAATA...AACAG|ACT   0 23.966

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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]);