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 = 34828600

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
196137599 GT-AG 0 0.0001446538508105 405 rna-XM_025014614.1 34828600 2 298938 299342 Temnothorax curvispinosus 300111 GAG|GTATAAGTTT...GTCTCCTGATTT/AATTTTCTGATT...CTCAG|AAA 0 1 13.036
196137600 GT-AG 0 1.000000099473604e-05 310 rna-XM_025014614.1 34828600 3 298362 298671 Temnothorax curvispinosus 300111 AAG|GTTTGTAAAT...TATTTTTTAAAT/TATTTTTTAAAT...TATAG|ACA 2 1 37.284
196137601 GT-AG 0 0.0001071643838777 229 rna-XM_025014614.1 34828600 4 297974 298202 Temnothorax curvispinosus 300111 AAT|GTAAATTACA...TGTTTATTAAAA/ATATTTCTAATA...TTTAG|ACA 2 1 51.778
196137602 GT-AG 0 1.3160125078510311e-05 259 rna-XM_025014614.1 34828600 5 297459 297717 Temnothorax curvispinosus 300111 AAG|GTAAACATAT...TTAATTTTATAT/ATTAATTTTATA...TTCAG|GCG 0 1 75.114
196137603 GT-AG 0 1.000000099473604e-05 87 rna-XM_025014614.1 34828600 6 297303 297389 Temnothorax curvispinosus 300111 GAG|GTGAGATTAT...TAATTTTTATTT/ATAATTTTTATT...CGCAG|ATT 0 1 81.404
196137604 GT-AG 0 1.000000099473604e-05 101 rna-XM_025014614.1 34828600 7 297112 297212 Temnothorax curvispinosus 300111 AAG|GTTAATCATC...TGTTTGTTATCT/CTGTTTGTTATC...TTCAG|TTT 0 1 89.608
196137621 GT-AG 0 0.0462481555023462 78 rna-XM_025014614.1 34828600 1 299435 299512 Temnothorax curvispinosus 300111 TGA|GTATTTTCTA...TATGTGTTATAT/TTTATGCTTATG...GAAAG|GAG   0 7.566

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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]);