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 = 25075765

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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
137882447 GT-AG 0 3.389402609409957e-05 3446 rna-XM_020755475.1 25075765 1 587763 591208 Orbicella faveolata 48498 CAG|GTAAATATCA...ACTGTCTTAATT/TCTTAATTCACT...TGTAG|ATG 1 1 60.921
137882448 GT-AG 0 1.000000099473604e-05 638 rna-XM_020755475.1 25075765 2 586858 587495 Orbicella faveolata 48498 AAG|GTAAGTTATG...CGTGTTTCAATT/TCGTGTTTCAAT...TTTAG|AAA 1 1 69.169
137882449 GT-AG 0 1.000000099473604e-05 2100 rna-XM_020755475.1 25075765 3 584713 586812 Orbicella faveolata 48498 AAA|GTAAGTTAGT...CATATTTTCTCT/CCAAGCCTAACA...CTTAG|TTG 1 1 70.559
137882450 GT-AG 0 0.0006787693709527 106 rna-XM_020755475.1 25075765 4 584549 584654 Orbicella faveolata 48498 GAT|GTAAGTTCTG...GATGTTTTATCT/CCTTGTTTCATG...AACAG|AAC 2 1 72.351
137882451 GT-AG 0 1.3283861876509651e-05 388 rna-XM_020755475.1 25075765 5 584098 584485 Orbicella faveolata 48498 TTG|GTAAGTATTT...ATTGTTTTAGCC/CATTAATTAACT...TTTAG|GCC 2 1 74.297
137882452 GT-AG 0 1.000000099473604e-05 517 rna-XM_020755475.1 25075765 6 583443 583959 Orbicella faveolata 48498 CAG|GTACAAAAAC...TGATATTTAAAT/TGATATTTAAAT...CGTAG|AGG 2 1 78.56
137882453 GT-AG 0 1.000000099473604e-05 2438 rna-XM_020755475.1 25075765 7 580867 583304 Orbicella faveolata 48498 AAG|GTAAGTACGC...TTCATCTTCTTC/AATGATTTCATC...TATAG|GGA 2 1 82.824

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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]);