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 = 13705600

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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
72997624 GT-AG 0 1.000000099473604e-05 20172 rna-XM_007529576.2 13705600 1 1179420 1199591 Erinaceus europaeus 9365 GGG|GTGAGTGTCC...TCTCTCTCCTCC/CACTCGCTCACA...CGCAG|AGA 2 1 0.469
72997625 GT-AG 0 1.5402734839691425e-05 1851 rna-XM_007529576.2 13705600 2 1199749 1201599 Erinaceus europaeus 9365 AAG|GTAGCACACA...TCTGCCTTTCTC/CCGTGCCAAACG...TACAG|GTG 0 1 15.211
72997626 GT-AG 0 2.2964618296043453e-05 10330 rna-XM_007529576.2 13705600 3 1201732 1212061 Erinaceus europaeus 9365 AAG|GTAACGGGAT...CAGATCTTAACA/CAGATCTTAACA...TCCAG|TTT 0 1 27.606
72997627 GT-AG 0 1.000000099473604e-05 7024 rna-XM_007529576.2 13705600 4 1212155 1219178 Erinaceus europaeus 9365 CAA|GTAAGTGCTT...CAAGCAGTAACG/GTGGAGGTGACT...GTCAG|GAA 0 1 36.338
72997628 GT-AG 0 1.000000099473604e-05 3089 rna-XM_007529576.2 13705600 5 1219319 1222407 Erinaceus europaeus 9365 GAG|GTGAGCAAGG...GGGGCCCTACCC/CTTCTAGTGACC...TGCAG|TGC 2 1 49.484
72997629 GT-AG 0 1.000000099473604e-05 701 rna-XM_007529576.2 13705600 6 1222565 1223265 Erinaceus europaeus 9365 AAG|GTGGGTGCCG...TGTCTCCTGCCG/CTGGGGCACAGT...GTTAG|ATT 0 1 64.225
72997630 GT-AG 0 1.000000099473604e-05 403 rna-XM_007529576.2 13705600 7 1223377 1223779 Erinaceus europaeus 9365 ACG|GTGAGTGCAC...GGTCCCTTCACG/GGTCCCTTCACG...TGCAG|GAG 0 1 74.648
72997631 GT-AG 0 1.000000099473604e-05 739 rna-XM_007529576.2 13705600 8 1223861 1224599 Erinaceus europaeus 9365 GAG|GTGAGGCCGG...CCCCCCTCACCG/GCCCCCCTCACC...TGTAG|GCG 0 1 82.254

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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]);