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 = 30863738

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Suggested facets: score, length, 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
172492224 GT-AG 0 1.000000099473604e-05 210 rna-XM_025312249.1 30863738 2 884586 884795 Rhizophagus irregularis 588596 AAG|GTGTGTAACA...TTATTTTTAAAT/TTATTTTTAAAT...CATAG|GTT 0 1 37.947
172492225 GT-AG 0 1.000000099473604e-05 81 rna-XM_025312249.1 30863738 3 884957 885037 Rhizophagus irregularis 588596 TGG|GTTAGTAAAT...TAATTCTTATTT/TTTATTTTAATT...TACAG|GGC 2 1 50.19
172492226 GT-AG 0 0.0110132352232949 102 rna-XM_025312249.1 30863738 4 885117 885218 Rhizophagus irregularis 588596 TGT|GTAAATTTCA...CTTTTTTTAATT/CTTTTTTTAATT...TATAG|TTT 0 1 56.198
172492227 GT-AG 0 0.0002589663971439 81 rna-XM_025312249.1 30863738 5 885583 885663 Rhizophagus irregularis 588596 CAT|GTAAGTATTA...TTATTCTTACTA/TTTATTCTTACT...AATAG|TCA 1 1 83.878
172492228 GT-AG 0 1.000000099473604e-05 69 rna-XM_025312249.1 30863738 6 885686 885754 Rhizophagus irregularis 588596 AAG|GTAAATAATG...AATCCTTTAACA/TATTGTTTGAAT...TATAG|TTT 2 1 85.551
172492229 GT-AG 0 0.0017442356372206 83 rna-XM_025312249.1 30863738 7 885846 885928 Rhizophagus irregularis 588596 AAG|GTATATTAAA...ATGATTTTAACG/CATGTTTTTATG...TTTAG|GAT 0 1 92.471
172492499 GT-AG 0 0.0001488291381898 93 rna-XM_025312249.1 30863738 1 884081 884173 Rhizophagus irregularis 588596 AAC|GTACAGAGTT...GTTTTTTTAATA/GTTTTTTTAATA...TTTAG|CAT   0 9.202

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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]);