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 = 25024131

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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
137658439 GT-AG 0 1.000000099473604e-05 3836 rna-gnl|WGS:SJOL|mRNA45 25024131 1 545781 549616 Opisthorchis felineus 147828 TTG|GTGAGTCACC...CAGACATTAAAT/TTTGTGGTAATA...TTCAG|CTC 0 1 18.863
137658440 GT-AG 0 1.000000099473604e-05 10275 rna-gnl|WGS:SJOL|mRNA45 25024131 2 550055 560329 Opisthorchis felineus 147828 GTC|GTAAGTGCAC...GCTTTGTTAGCT/GCTGTATTCAGG...CCTAG|ACG 0 1 32.04
137658441 GT-AG 0 1.000000099473604e-05 1284 rna-gnl|WGS:SJOL|mRNA45 25024131 3 560730 562013 Opisthorchis felineus 147828 TTG|GTAAGTCGTG...TAACTCTTACGC/TTCCAATTAACT...TGTAG|CTG 1 1 44.073
137658442 GT-AG 0 1.000000099473604e-05 11120 rna-gnl|WGS:SJOL|mRNA45 25024131 4 562757 573876 Opisthorchis felineus 147828 AAA|GTAGGTTAAT...TTGGTTTTCACA/TTGGTTTTCACA...TTCAG|GGA 0 1 66.426
137658443 GT-AG 0 6.913398360430758e-05 3190 rna-gnl|WGS:SJOL|mRNA45 25024131 5 574021 577210 Opisthorchis felineus 147828 AAG|GTAAGCTCTC...AGTTCCATAAAT/TATTGCCTTACT...TCCAG|TTC 0 1 70.758
137658444 GT-AG 0 1.000000099473604e-05 17799 rna-gnl|WGS:SJOL|mRNA45 25024131 6 577613 595411 Opisthorchis felineus 147828 CAC|GTGAGTTTGT...TCAACTTCATTT/CGCTGTTTCATT...TGAAG|ATC 0 1 82.852
137658445 GT-AG 0 1.000000099473604e-05 2023 rna-gnl|WGS:SJOL|mRNA45 25024131 7 595683 597705 Opisthorchis felineus 147828 TAG|GTGAGTTAGC...CTGCTTTTCACT/CTGCTTTTCACT...ATCAG|CTC 1 1 91.005

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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]);