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 = 20429274

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Suggested facets: 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
109622526 GT-AG 0 1.3173040062107627e-05 4544 rna-XM_042645199.1 20429274 1 9806989 9811532 Macadamia integrifolia 60698 GAC|GTAAGTACAA...CTTTTTTTATTT/TCTTTTTTTATT...TGCAG|GCA 2 1 12.31
109622527 GT-AG 0 2.663512768115983e-05 125 rna-XM_042645199.1 20429274 2 9812629 9812753 Macadamia integrifolia 60698 ACG|GTAGGTGTTG...ATAACCTTAGTT/TGATATTTAATT...TGTAG|GGA 0 1 32.151
109622528 GT-AG 0 0.0001785730189067 101 rna-XM_042645199.1 20429274 3 9813042 9813142 Macadamia integrifolia 60698 AAG|GTGTCAAAGA...ATTTTTTTAATC/ATTTTTTTAATC...TGCAG|ATG 0 1 37.364
109622529 GT-AG 0 0.0036930261861489 1823 rna-XM_042645199.1 20429274 4 9815116 9816938 Macadamia integrifolia 60698 CGG|GTATGTACCT...AATTTCTTACCC/CCATTTTTTATT...ATCAG|TCA 2 1 73.081
109622530 GT-AG 0 0.0018913462344418 1058 rna-XM_042645199.1 20429274 5 9817061 9818118 Macadamia integrifolia 60698 TAG|GTATTTCTCT...CTTCCATTATTT/TGGTTATTGATA...GATAG|GTA 1 1 75.29
109627074 GT-AG 0 1.000000099473604e-05 2247 rna-XM_042645199.1 20429274 6 9818261 9820507 Macadamia integrifolia 60698 GAG|GTGTGTATAC...GATTTTTTCATT/GATTTTTTCATT...TGTAG|ATT   0 77.86
109627075 GT-AG 0 1.3779894647941816e-05 117 rna-XM_042645199.1 20429274 7 9820861 9820977 Macadamia integrifolia 60698 AAA|GTATGAACCA...CCTGTCTAATTC/TCCTGTCTAATT...CTTAG|TGG   0 84.251

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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]);