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 = 8594603

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
46266299 GT-AG 0 1.221777390873998e-05 104 rna-XM_006464650.3 8594603 1 6884320 6884423 Citrus sinensis 2711 CAG|GTACTGTTAC...TGTTTGTTATAA/TTGTTTGTTATA...TGAAG|GTG 2 1 1.647
46266300 GT-AG 0 0.0021091998740162 524 rna-XM_006464650.3 8594603 2 6884604 6885127 Citrus sinensis 2711 AAG|GTATAATTCA...TCCTTTTTACTA/TTTTTACTAACA...AATAG|ATT 2 1 6.672
46266301 GT-AG 0 8.577469294646928e-05 268 rna-XM_006464650.3 8594603 3 6885241 6885508 Citrus sinensis 2711 AAG|GTATGACGTG...TTATTTTTAATG/TTTATGCTAACT...ATCAG|CAA 1 1 9.827
46266302 GT-AG 0 1.000000099473604e-05 97 rna-XM_006464650.3 8594603 4 6885550 6885646 Citrus sinensis 2711 AAG|GTAATTCATC...TGGCCCTTGTCA/GTCATGCTGATG...TTTAG|ACG 0 1 10.972
46266303 GT-AG 0 0.0001298006479011 105 rna-XM_006464650.3 8594603 5 6885700 6885804 Citrus sinensis 2711 CAA|GTAAATTATC...CATGCATTGATT/CATGCATTGATT...AACAG|GAT 2 1 12.451
46266304 GT-AG 0 1.7190174796559307e-05 225 rna-XM_006464650.3 8594603 6 6885958 6886182 Citrus sinensis 2711 AAG|GTATGATAAA...AGATTATTATCT/AAGATTATTATC...TCTAG|GGA 2 1 16.723
46266305 GT-AG 0 1.000000099473604e-05 535 rna-XM_006464650.3 8594603 7 6886404 6886938 Citrus sinensis 2711 ATG|GTATGGAAGG...AGCCATTTGATG/CAGAAAGTAATT...TGCAG|ATG 1 1 22.892
46266306 GT-AG 0 1.000000099473604e-05 490 rna-XM_006464650.3 8594603 8 6888612 6889101 Citrus sinensis 2711 AAG|GTTCTGAAAT...TTTCTTTTATAA/ATTATGTTAATT...GACAG|GAA 0 1 69.598

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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]);