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 = 20642271

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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
110536224 GT-AG 0 0.0207846770059775 482 rna-XM_029104507.1 20642271 2 8810591 8811072 Malus domestica 3750 CTG|GTACCCGTAC...ATTGCTTTCGTT/TATTCTCTCATT...TTCAG|GAA 0 1 7.736
110536225 GT-AG 0 1.000000099473604e-05 1101 rna-XM_029104507.1 20642271 3 8811147 8812247 Malus domestica 3750 ACG|GTTGGTTAAA...TTATCTTTGGTT/TTGGTTCTCATA...TACAG|AGA 2 1 8.808
110536226 GT-AG 0 1.1369198809349951e-05 202 rna-XM_029104507.1 20642271 4 8815285 8815486 Malus domestica 3750 CAG|GTAATCAACT...ATAGCCCTAATG/AATGATCTAACC...TGCAG|ATT 0 1 52.803
110536227 GT-AG 0 1.8007615888215253e-05 343 rna-XM_029104507.1 20642271 5 8818032 8818374 Malus domestica 3750 CTG|GTAAGTTATT...TTTTTCTTTGTT/AAATAACTGATA...ATTAG|CTG 1 1 89.671
110536228 GT-AG 0 1.000000099473604e-05 412 rna-XM_029104507.1 20642271 6 8818830 8819241 Malus domestica 3750 CAG|GTCAAATGCT...AACCTCTTATCA/GCTATTTTAACC...TACAG|GTT 0 1 96.262
110536229 GT-AG 0 1.000000099473604e-05 127 rna-XM_029104507.1 20642271 7 8819359 8819485 Malus domestica 3750 AAG|GTAAGTGGAC...TCATTTTTGATC/CCAATTCTCATT...GACAG|AGT 0 1 97.957
110542800 GT-AG 0 1.000000099473604e-05 121 rna-XM_029104507.1 20642271 1 8810306 8810426 Malus domestica 3750 CAA|GTGAGGAACA...GATTTGTTATCT/TGTTATCTGACC...GGCAG|GAG   0 6.78

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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]);