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 = 38015534

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
209850356 GT-AG 0 0.0011522404176048 178 rna-XM_028048889.1 38015534 1 39546103 39546280 Vigna unguiculata 3917 TCG|GTAACAACCT...TTTCCCTTATAA/TTCTGTTTCAAT...AACAG|CAA 1 1 3.886
209850357 GT-AG 0 0.0001323007495736 318 rna-XM_028048889.1 38015534 2 39545567 39545884 Vigna unguiculata 3917 ATG|GTAAATCTCC...CAGTTCTTGATG/AATAATCTCAGT...ACCAG|GGA 0 1 10.404
209850358 GT-AG 0 1.000000099473604e-05 134 rna-XM_028048889.1 38015534 3 39544888 39545021 Vigna unguiculata 3917 CAG|GTGTTTATCA...GTCTACTAAATT/AATTTATTCATG...AATAG|GTT 2 1 26.697
209850359 GC-AG 0 1.000000099473604e-05 2342 rna-XM_028048889.1 38015534 4 39541828 39544169 Vigna unguiculata 3917 TTG|GCTGTCATAA...GATCTTTTACTT/TTTTACTTTACA...TGAAG|CAA 0 1 48.161
209850360 GT-AG 0 0.0010650792690897 357 rna-XM_028048889.1 38015534 5 39541347 39541703 Vigna unguiculata 3917 TCG|GTAACAACCT...TTTGCCTTATAT/TTCTGTTTCAAT...AATAG|CAA 1 1 51.868
209850361 GT-AG 0 0.0001572055416932 320 rna-XM_028048889.1 38015534 6 39540809 39541128 Vigna unguiculata 3917 ATG|GTAAATTCAA...CATTTCTTGATG/ATGAAGCTCATT...AGCAG|GGA 0 1 58.386
209850362 GT-AG 0 0.0002901383316545 129 rna-XM_028048889.1 38015534 7 39540135 39540263 Vigna unguiculata 3917 CAG|GTATTTATCA...CTAAGTTTATTC/AGTTTATTCATG...AATAG|GTT 2 1 74.679

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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]);