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 = 19667990

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Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
105497630 GT-AG 0 0.0094364146449171 162 rna-KI688_000998 19667990 1 3550481 3550642 Linnemannia hyalina 64524 TCG|GTATGTTCAC...GCATCCTTGTCT/CATATTCCGACT...TCGAG|GAC 0 1 7.233
105497631 GT-AG 0 1.000000099473604e-05 309 rna-KI688_000998 19667990 2 3550898 3551206 Linnemannia hyalina 64524 CGC|GTAAAGGGCA...CTGTCCGTGTCA/GTCCGTGTCAAC...TCAAG|GTG 0 1 11.721
105497632 GT-AG 0 1.000000099473604e-05 497 rna-KI688_000998 19667990 3 3551919 3552415 Linnemannia hyalina 64524 TCT|GTAAGGATTG...ATTTTTTTCCCT/CTGATGCTAATC...TTTAG|TCG 1 1 24.252
105497633 GT-AG 0 0.1760927487746005 118 rna-KI688_000998 19667990 4 3553081 3553198 Linnemannia hyalina 64524 GAG|GTATATTTTC...TTTCTTTTAATT/TTTCTTTTAATT...TTTAG|TAC 0 1 35.956
105497634 GT-AG 0 1.000000099473604e-05 101 rna-KI688_000998 19667990 5 3554437 3554537 Linnemannia hyalina 64524 CAT|GTGAGTGGAA...GGCTTTTTACTA/TTTTTACTAATA...GTTAG|GTT 2 1 57.744
105497635 GT-AG 0 1.000000099473604e-05 108 rna-KI688_000998 19667990 6 3555346 3555453 Linnemannia hyalina 64524 AAG|GTAATGCTCT...TTTTCCTTTATG/TTTTCCTTTATG...TCTAG|ATG 0 1 71.964
105497636 GT-AG 0 1.000000099473604e-05 97 rna-KI688_000998 19667990 7 3556888 3556984 Linnemannia hyalina 64524 AAG|GTAATAGCAC...ATTGCTTTATTT/AATTGCTTTATT...CGTAG|GCC 0 1 97.202
105497637 GT-AG 0 3.252871472254014e-05 118 rna-KI688_000998 19667990 8 3556999 3557116 Linnemannia hyalina 64524 AGG|GTACTTGGTT...AAACCCTCAATG/GAAACCCTCAAT...TGAAG|TGT 2 1 97.448

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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]);