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 = 20642295

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
110536551 GT-AG 0 1.000000099473604e-05 565 rna-XM_008345209.3 20642295 1 18701964 18702528 Malus domestica 3750 CAG|GTGGGACTTG...TTTCTGTTGATG/TTTTTGTTTATA...CGCAG|GTG 0 1 5.851
110536552 GT-AG 0 0.0001653825697689 161 rna-XM_008345209.3 20642295 2 18702718 18702878 Malus domestica 3750 GAA|GTAAGTTCCT...TTAACCTTATTA/TTTAACCTTATT...TACAG|GTT 0 1 10.578
110536553 GT-AG 0 1.000000099473604e-05 95 rna-XM_008345209.3 20642295 3 18702972 18703066 Malus domestica 3750 GAG|GTAAATGGTT...TATGCTTTGACT/CTTTGACTAATT...TGCAG|GTT 0 1 12.903
110536554 GT-AG 0 0.0014383317600064 77 rna-XM_008345209.3 20642295 4 18703250 18703326 Malus domestica 3750 GAG|GTAATCTTGT...TTTTCCTTGCTT/GTTGGCATTATT...TGCAG|GTC 0 1 17.479
110536555 GT-AG 0 1.0605467685268049e-05 102 rna-XM_008345209.3 20642295 5 18703430 18703531 Malus domestica 3750 CTG|GTACTGATTT...ATTTTCTCATTT/ATTTTTTTCATT...TACAG|CGG 1 1 20.055
110536556 GT-AG 0 0.0001773814936725 791 rna-XM_008345209.3 20642295 6 18703718 18704508 Malus domestica 3750 AAG|GTATGTTGTT...GGAATCATATAT/GTTGGAATCATA...TCCAG|GTA 1 1 24.706
110536557 GT-AG 0 2.7297512496794754e-05 212 rna-XM_008345209.3 20642295 7 18706926 18707137 Malus domestica 3750 CCC|GTAAGATAAT...TTTCTCTTACCT/ATTTCTCTTACC...TTTAG|AAG 0 1 85.146

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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]);