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 = 25075803

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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
137882711 GT-AG 0 1.000000099473604e-05 1248 rna-XM_020761879.1 25075803 1 521349 522596 Orbicella faveolata 48498 CAG|GTAAGTCATC...CAATCTTTACTG/ACCAATTTCATT...TCAAG|ATT 2 1 19.162
137882712 GT-AG 0 2.841575655098977e-05 796 rna-XM_020761879.1 25075803 2 520335 521130 Orbicella faveolata 48498 GAG|GTAATCATGA...GGCTCTGTAACT/ATCGCATTTATT...TGCAG|GTG 1 1 29.426
137882713 GT-AG 0 1.000000099473604e-05 123 rna-XM_020761879.1 25075803 3 520012 520134 Orbicella faveolata 48498 AAG|GTCAGTAGTT...GATGTTTTGTCA/TTGTCACTCATC...TGTAG|GTT 0 1 38.842
137882714 GT-AG 0 0.0001085531452485 382 rna-XM_020761879.1 25075803 4 519334 519715 Orbicella faveolata 48498 ATG|GTAAGCTGTA...TTATCTCTGACT/TTATCTCTGACT...TGTAG|GTT 2 1 52.778
137882715 GT-AG 0 1.000000099473604e-05 219 rna-XM_020761879.1 25075803 5 518984 519202 Orbicella faveolata 48498 ATG|GTGAGATTGT...GCATTTTTGTTT/CAAAAATTTACC...CTCAG|ACC 1 1 58.945
137882716 GT-AG 0 0.0210018569416612 140 rna-XM_020761879.1 25075803 6 518675 518814 Orbicella faveolata 48498 ACG|GTAACTATTC...TGCATTTTAACA/TGCATTTTAACA...CACAG|ACG 2 1 66.902
137882717 GT-AG 0 1.000000099473604e-05 1302 rna-XM_020761879.1 25075803 7 517212 518513 Orbicella faveolata 48498 AAG|GTAATGACTC...TTCGTCTTTCTT/TCCCCGCTCACA...AACAG|TGT 1 1 74.482

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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]);