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 = 20429269

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Suggested facets: dinucleotide_pair, score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
109622470 GT-AG 0 1.000000099473604e-05 6349 rna-XM_042643558.1 20429269 1 635941 642289 Macadamia integrifolia 60698 TAC|GTAAGTACTC...CTCTTTTTGTTT/ACATTGTTCATC...TGCAG|GTA 2 1 7.693
109622471 GT-AG 0 1.000000099473604e-05 112 rna-XM_042643558.1 20429269 2 643386 643497 Macadamia integrifolia 60698 AAG|GTAGGTATTA...TGATACTTAATT/CTTAGTTTGATA...TGTAG|GGA 0 1 24.358
109622472 GT-AG 0 9.623449749962296e-05 121 rna-XM_042643558.1 20429269 3 643801 643921 Macadamia integrifolia 60698 AAG|GTCTCAAAGA...TCCCTCTTAAGC/ATAAAATTTATT...TGCAG|ATG 0 1 28.965
109627059 GC-AG 0 1.0357547482221326e-05 866 rna-XM_042643558.1 20429269 4 646576 647441 Macadamia integrifolia 60698 AAG|GCAACTCTCT...TGTTTCGTGATT/AATTTTGTAATC...ATCAG|GTT   0 69.317
109627060 GT-AG 0 1.000000099473604e-05 1108 rna-XM_042643558.1 20429269 5 647605 648712 Macadamia integrifolia 60698 TTT|GTGAGTATAT...CACTTCTTATTT/ATTGTTTTCACT...TACAG|ATG   0 71.796
109627061 GT-AG 0 1.000000099473604e-05 1872 rna-XM_042643558.1 20429269 6 648783 650654 Macadamia integrifolia 60698 TAG|GTAAGTTAAA...AGTCTCTTCATT/AAGTCATTCACT...TACAG|TTT   0 72.86
109627062 GT-AG 0 1.000000099473604e-05 128 rna-XM_042643558.1 20429269 7 652055 652182 Macadamia integrifolia 60698 GTG|GTAGGAAACA...TTCAATTTGACA/AGTCTATTTACC...TTTAG|GCT   0 94.146

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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]);