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)

6 rows where transcript_id = 20642331

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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
110536915 GT-AG 0 0.0053997035532279 133 rna-XM_008356044.3 20642331 3 31962255 31962387 Malus domestica 3750 AAG|GTATGTCTTC...TTTCCCCTAACT/TTTCCCCTAACT...TGCAG|ACC 1 1 12.518
110536916 GT-AG 0 0.0081397249062134 116 rna-XM_008356044.3 20642331 4 31960553 31960668 Malus domestica 3750 AAG|GTATGCTGCT...TACTCTATAATA/TACCACCTCATA...TTCAG|GTT 0 1 58.69
110536917 GT-AG 0 0.0364752907064839 113 rna-XM_008356044.3 20642331 5 31960323 31960435 Malus domestica 3750 CAG|GTACCCCTAT...TGGACCTTGGTT/TAGTTAGTTATT...TGTAG|GCT 0 1 62.096
110536918 GT-AG 0 1.000000099473604e-05 107 rna-XM_008356044.3 20642331 6 31960041 31960147 Malus domestica 3750 AAG|GTTAATGCTC...TTATCTTTATTT/CTTATCTTTATT...TGCAG|ATA 1 1 67.191
110542849 GT-AG 0 0.0005069360405863 228 rna-XM_008356044.3 20642331 1 31963390 31963617 Malus domestica 3750 CTG|GTATGAATTT...GTGCTTTTATTT/TGTGCTTTTATT...CCCAG|TTA   0 4.134
110542850 GT-AG 0 0.0010553761596121 241 rna-XM_008356044.3 20642331 2 31963102 31963342 Malus domestica 3750 ATT|GTAAGCAGCA...TTTACTTTAATT/TTTACTTTAATT...TGTAG|AAC   0 5.502

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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]);