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 = 6866878

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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
35746922 GT-AG 0 1.000000099473604e-05 1499 rna-XM_008072316.2 6866878 1 7932 9430 Carlito syrichta 1868482 CAG|GTGGGTGGCT...GTGGGCTTACCC/GGTGGGCTTACC...CCCAG|GAC 1 1 1.876
35746923 GT-AG 0 1.000000099473604e-05 863 rna-XM_008072316.2 6866878 2 9545 10407 Carlito syrichta 1868482 CCA|GTGAGTGTGG...ACAGTCTTGGAG/TCCGCGCTAACA...CACAG|GCC 1 1 18.326
35746924 GT-AG 0 1.000000099473604e-05 1612 rna-XM_008072316.2 6866878 3 10432 12043 Carlito syrichta 1868482 CAG|GTAAGGCTCC...GGGGTCACACCT/CCCGGGGTCACA...CCCAG|AGC 1 1 21.789
35746925 GT-AG 0 1.000000099473604e-05 87 rna-XM_008072316.2 6866878 4 12168 12254 Carlito syrichta 1868482 GAT|GTGAGCTCCG...TCACCCTTCCCC/GGGAGTCTGAGT...GCTAG|GCT 2 1 39.683
35746926 GT-AG 0 1.000000099473604e-05 381 rna-XM_008072316.2 6866878 5 12314 12694 Carlito syrichta 1868482 ATG|GTGAGTCCCA...GGCCCCTTCCTC/AGCTGCCCCAGC...TGCAG|GGG 1 1 48.196
35746927 GT-AG 0 1.000000099473604e-05 285 rna-XM_008072316.2 6866878 6 12746 13030 Carlito syrichta 1868482 GAG|GTGAGTGGCA...GCTCACGGGACC/ACCCCGCTCACG...CCCAG|ATG 1 1 55.556
35746928 GT-AG 0 2.2807015581858256e-05 73 rna-XM_008072316.2 6866878 7 13116 13188 Carlito syrichta 1868482 CAA|GTAAGCGCTT...TCCGCCTTGTCC/TTGTCCCCCACA...CGCAG|GAT 2 1 67.821
35746929 GT-AG 0 1.000000099473604e-05 879 rna-XM_008072316.2 6866878 8 13316 14194 Carlito syrichta 1868482 CAG|GTACAGCGGA...GCAGCCGTGACC/GCAGCCGTGACC...CACAG|CAC 0 1 86.147

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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]);