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 = 30057318

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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
168293224 GT-AG 0 1.000000099473604e-05 4234 rna-XM_007419825.3 30057318 1 1395331 1399564 Python bivittatus 176946 GTG|GTGAGAGGAG...GTCTTTGTGACT/CTTTTTGTAATG...TCCAG|GCT 2 1 14.715
168293225 GT-AG 0 1.000000099473604e-05 3983 rna-XM_007419825.3 30057318 2 1399672 1403654 Python bivittatus 176946 CAG|GTAAGTGAAC...TCCTTTTTATCC/CCATGTTTCATT...TGCAG|TAC 1 1 21.141
168293226 GT-AG 0 0.0001092187231363 461 rna-XM_007419825.3 30057318 3 1403686 1404146 Python bivittatus 176946 CAG|GTAGGCATTC...GTGGTCTTGAAG/TGTTTACTAATA...TCCAG|TGA 2 1 23.003
168293227 GT-AG 0 1.000000099473604e-05 1132 rna-XM_007419825.3 30057318 4 1404283 1405414 Python bivittatus 176946 AAG|GTAAATAGGA...TCTCTCTTATTT/GTCTCTCTTATT...CCCAG|TTC 0 1 31.171
168293228 GT-AG 0 1.000000099473604e-05 595 rna-XM_007419825.3 30057318 5 1405500 1406094 Python bivittatus 176946 TCT|GTGAGTATGC...ATGTTTTTAACA/ATGTTTTTAACA...TCCAG|TAC 1 1 36.276
168293229 GT-AG 0 1.000000099473604e-05 260 rna-XM_007419825.3 30057318 6 1406233 1406492 Python bivittatus 176946 AAA|GTAAGACAAT...TTTGTTTTACTC/TTTTGTTTTACT...TACAG|AGC 1 1 44.565
168293230 GT-AG 0 1.000000099473604e-05 1072 rna-XM_007419825.3 30057318 7 1406588 1407659 Python bivittatus 176946 GTG|GTAAGGGTGA...ACAACTTTAGTG/TGCAGCCTTACA...TGCAG|GTA 0 1 50.27
168293231 GT-AG 0 1.000000099473604e-05 1903 rna-XM_007419825.3 30057318 8 1407796 1409698 Python bivittatus 176946 AAG|GTGCTATATT...CTGTGCTTACTA/TCTGTGCTTACT...TTTAG|ATC 1 1 58.438

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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]);