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 = 29320824

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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
163356651 GT-AG 0 0.0002590533835129 81 rna-XM_021953437.1 29320824 1 329827 329907 Prunus avium 42229 TAT|GTCCCTGAAA...AAATTTTTGTAC/TTTTTGTACATT...TTAAG|AAA 0 1 19.475
163356652 AC-CA 0 1.000000099473604e-05 95 rna-XM_021953437.1 29320824 2 331010 331104 Prunus avium 42229 AGG|ACGTTGTCCG...TATTATTTATCC/CTATATCTGATA...TGCCA|AAA 1 1 43.007
163356653 TG-CT 0 3.386531197687697e-05 135 rna-XM_021953437.1 29320824 3 332536 332670 Prunus avium 42229 AGA|TGGACAATAT...TTTCTTTTGGCC/ACTTTATTCAAG...ATCCT|CGT 1 1 73.564
163356654 TA-CC 0 3.179580642778196e-05 251 rna-XM_021953437.1 29320824 4 332767 333017 Prunus avium 42229 GTA|TAGATTTTAT...TTTTTTATAATT/TTTTTTATAATT...CTCCC|TAG 1 1 75.614
163356655 GT-AG 0 1.000000099473604e-05 36953 rna-XM_021953437.1 29320824 5 333672 370624 Prunus avium 42229 CTG|GTCAAAAAGT...CCGATCTTAACT/CCGATCTTAACT...TTCAG|AAA 1 1 89.579
163356656 GT-AG 0 1.000000099473604e-05 787 rna-XM_021953437.1 29320824 6 370637 371423 Prunus avium 42229 CAG|GTTCTACACA...TTTCTCTAAATT/TTTTCTCTAAAT...ATCAG|GAT 1 1 89.836
163356657 GT-AG 0 0.4386540666842211 1604 rna-XM_021953437.1 29320824 7 371593 373196 Prunus avium 42229 TAT|GTATATTGAT...AGTATCTTAATT/ATATTCCTAACT...ACTAG|AGA 2 1 93.444

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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]);