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 = 20642282

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Suggested facets: 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
110536426 GT-AG 0 4.242500240208446e-05 92 rna-XM_029103471.1 20642282 1 28867460 28867551 Malus domestica 3750 CGA|GTAATTACTG...GGATTTTTAAAG/CTGTTTTTCATA...CACAG|GGA 2 1 7.768
110536427 GT-AG 0 1.000000099473604e-05 147 rna-XM_029103471.1 20642282 2 28868642 28868788 Malus domestica 3750 ACA|GTGAGATATC...TTTTCCTTCACT/TTTTCCTTCACT...TCCAG|GCT 0 1 25.446
110536428 GT-AG 0 1.000000099473604e-05 52 rna-XM_029103471.1 20642282 3 28868898 28868949 Malus domestica 3750 TCG|GTGATGACGC...GCATTTTTACAA/CTGATATTTACA...TGCAG|TCA 1 1 27.214
110536429 GT-AG 0 9.893201841952648e-05 82 rna-XM_029103471.1 20642282 4 28869156 28869237 Malus domestica 3750 GAG|GTACGATTTT...TTTTCTTGGACT/TAGGTTCTGAGT...AACAG|CCT 0 1 30.555
110542806 GT-AG 0 1.000000099473604e-05 125 rna-XM_029103471.1 20642282 7 28872468 28872592 Malus domestica 3750 AAG|GTACTACGGA...TTTTGCTTGAAT/TCTGTTTTCAAA...TGTAG|CTA   0 82.906
110542807 GT-AG 0 1.000000099473604e-05 116 rna-XM_029103471.1 20642282 8 28872752 28872867 Malus domestica 3750 GAG|GTATAAAAAA...AAAGTATTGATT/AAAGTATTGATT...TGTAG|GGT   0 85.485
110542808 GT-AG 0 0.0032380673961192 321 rna-XM_029103471.1 20642282 9 28873165 28873485 Malus domestica 3750 ATG|GTATGCAGTT...CACATTTTGAAC/CACATTTTGAAC...CTCAG|GAC   0 90.302

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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]);