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 = 17188146

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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
91738496 GT-AG 0 1.000000099473604e-05 953 rna-XM_009010784.1 17188146 1 4254289 4255241 Helobdella robusta 6412 AAT|GTTTGTAAAA...TATACATTATAT/CATTATATTATT...TGAAG|GCT 0 1 1.339
91738497 GT-AG 0 1.000000099473604e-05 168 rna-XM_009010784.1 17188146 2 4253996 4254163 Helobdella robusta 6412 CAA|GTTGGTACTC...AAAGTTATAAAA/TTAAAAGTTATA...AACAG|AGC 2 1 4.274
91738498 GT-AG 0 1.000000099473604e-05 179 rna-XM_009010784.1 17188146 3 4253573 4253751 Helobdella robusta 6412 AAG|GTTTGATGGG...GTACTGTTGAAA/AGGAAATTTATT...TCTAG|AAA 0 1 10.005
91738499 GT-AG 0 1.000000099473604e-05 333 rna-XM_009010784.1 17188146 4 4253146 4253478 Helobdella robusta 6412 ATT|GTTAGTGCTT...TGTTTCTTATTT/TTGTTTCTTATT...TGAAG|ATA 1 1 12.212
91738500 GT-AG 0 0.0001380736529497 759 rna-XM_009010784.1 17188146 5 4251977 4252735 Helobdella robusta 6412 AAG|GTTTTTATTT...TATACTTTAAAA/ATTATATTTATA...TTAAG|GAT 0 1 21.841
91738501 GT-AG 0 1.000000099473604e-05 187 rna-XM_009010784.1 17188146 6 4250218 4250404 Helobdella robusta 6412 AAA|GTGATGCCTT...CCATCTTCAGCT/CTTCAGCTGACG...ATCAG|CAA 0 1 58.76
91738502 GT-AG 0 8.38857420212283e-05 223 rna-XM_009010784.1 17188146 7 4249443 4249665 Helobdella robusta 6412 TCT|GTAAGATCAA...TTTGTTTTGATA/TTTGTTTTGATA...AAAAG|AGA 0 1 71.724

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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]);