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)

8 rows where transcript_id = 20642351

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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
110537099 GT-AG 0 1.000000099473604e-05 189 rna-XM_008372758.3 20642351 2 23652246 23652434 Malus domestica 3750 AAG|GTTAGACCTT...CCCTACTTAATT/TGACTCCTGATT...TGCAG|GTT 0 1 52.862
110537100 GT-AG 0 1.000000099473604e-05 94 rna-XM_008372758.3 20642351 3 23652662 23652755 Malus domestica 3750 TGG|GTAGAGCACT...GTATTTTTAATG/TTTTATTTAATT...TACAG|GGT 2 1 59.925
110537101 GT-AG 0 1.000000099473604e-05 518 rna-XM_008372758.3 20642351 4 23653089 23653606 Malus domestica 3750 CAG|GTAAAGCGTG...ACATATTTAATT/ACATATTTAATT...TACAG|CTC 2 1 70.286
110537102 GT-AG 0 0.0006995714928578 113 rna-XM_008372758.3 20642351 5 23653854 23653966 Malus domestica 3750 CAG|GTATTTGTTA...ATACCGTTACCT/CGTTACCTAATG...TACAG|ATG 0 1 77.971
110537103 GT-AG 0 1.000000099473604e-05 83 rna-XM_008372758.3 20642351 6 23654096 23654178 Malus domestica 3750 CAG|GTGAGTGGAA...CATGTTCTGACA/TTTTTCCTTATT...TCCAG|TTA 0 1 81.985
110537104 GT-AG 0 1.000000099473604e-05 235 rna-XM_008372758.3 20642351 7 23654395 23654629 Malus domestica 3750 AAG|GTAATTATAT...ATTATTTTACCT/AAAATGTTTATT...TACAG|GTT 0 1 88.706
110537105 GT-AG 0 0.0165201817975991 164 rna-XM_008372758.3 20642351 8 23654754 23654917 Malus domestica 3750 CAA|GTATGTAGTC...CATTCCTTATTT/ATTTTGCTGACA...TGCAG|ATG 1 1 92.564
110542867 GT-AG 0 1.000000099473604e-05 282 rna-XM_008372758.3 20642351 1 23650336 23650617 Malus domestica 3750 CAG|GTAAATCCCT...TGTTTTTTGATT/TGTTTTTTGATT...ATCAG|GGT   0 4.792

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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]);