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 = 29350676

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
163478949 GT-AG 0 1.000000099473604e-05 308 rna-XM_034346098.1 29350676 1 41912898 41913205 Prunus dulcis 3755 TGG|GTAATTACTA...CTTTGTTTAATT/CTTTGTTTAATT...GCCAG|GCA 2 1 9.194
163478950 GT-AG 0 3.497523221949773e-05 398 rna-XM_034346098.1 29350676 2 41911383 41911780 Prunus dulcis 3755 TCT|GTAAGTACTT...ATTTTTCTAACT/ATTTTTCTAACT...AACAG|GGA 0 1 29.02
163478951 GT-AG 0 0.0002641088846441 159 rna-XM_034346098.1 29350676 3 41910942 41911100 Prunus dulcis 3755 AAG|GTATAATAAT...TGGATTTTAATT/TGGATTTTAATT...AACAG|TTG 0 1 34.026
163478952 GT-AG 0 1.000000099473604e-05 127 rna-XM_034346098.1 29350676 4 41909957 41910083 Prunus dulcis 3755 CAG|GTCAATCCTT...TATTTCTTATAG/GTATTTCTTATA...TATAG|GGA 0 1 49.255
163478953 GT-AG 0 0.0483633777490337 126 rna-XM_034346098.1 29350676 5 41908721 41908846 Prunus dulcis 3755 CAG|GTCTCTCTCT...TATTTCTTATAG/GTATTTCTTATA...TACAG|GGA 0 1 68.956
163478954 GT-AG 0 1.000000099473604e-05 79 rna-XM_034346098.1 29350676 6 41907804 41907882 Prunus dulcis 3755 CTG|GTGAGAATTT...AACTCTTTAATA/AACTCTTTAATA...TGCAG|GCT 1 1 83.83
163478955 GG-CC 0 0.0025591081330394 806 rna-XM_034346098.1 29350676 7 41906891 41907696 Prunus dulcis 3755 GCT|GGTCACACCC...TGCTTCTTGAAG/AAGACAATGACT...TCGCC|GGT 0 1 85.729
163478956 GT-AG 0 0.0007853244325933 616 rna-XM_034346098.1 29350676 8 41905993 41906608 Prunus dulcis 3755 CAG|GTGTCTCTCT...AATGTGTTGCTT/TAAATATGCATA...TGCAG|AGA 0 1 90.735

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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]);