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 = 25075701

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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
137882177 GT-AG 0 1.000000099473604e-05 1246 rna-XM_020748136.1 25075701 1 91235 92480 Orbicella faveolata 48498 AAG|GTAATAGTTT...TCTACTTTGTTG/GTAATTGTCACA...AATAG|AAT 0 1 5.0
137882178 GT-AG 0 1.000000099473604e-05 877 rna-XM_020748136.1 25075701 2 89845 90721 Orbicella faveolata 48498 CAG|GTAAGTATGG...ACTGTTTTAAAA/ACTGTTTTAAAA...TTTAG|GTT 0 1 33.5
137882179 GT-AG 0 1.000000099473604e-05 1445 rna-XM_020748136.1 25075701 3 88292 89736 Orbicella faveolata 48498 GAG|GTATGAAATT...ACAAGCTTAATT/TAATTGCTGATA...TGTAG|ATG 0 1 39.5
137882180 GT-AG 0 1.000000099473604e-05 793 rna-XM_020748136.1 25075701 4 87410 88202 Orbicella faveolata 48498 GAA|GTAAGAAAAA...ACTGTCTGAATT/TGAATTGTAATT...ATAAG|GAG 2 1 44.444
137882181 GT-AG 0 1.000000099473604e-05 4479 rna-XM_020748136.1 25075701 5 82821 87299 Orbicella faveolata 48498 GAT|GTTTAAAATA...GGGTCCTGGGTC/GGGTTTCGGAGA...TTAAG|TGT 1 1 50.556
137882182 GT-AG 0 1.000000099473604e-05 1101 rna-XM_020748136.1 25075701 6 81526 82626 Orbicella faveolata 48498 AAT|GTAAATGAAC...ATAAGCTTAAAT/TAGTAATTCATC...CGTAG|GAA 0 1 61.333
137882183 GT-AG 0 1.000000099473604e-05 7947 rna-XM_020748136.1 25075701 7 73457 81403 Orbicella faveolata 48498 CAG|GTATGGCACA...GCTTCTTTGTTT/CTGTTAGTAAGG...TTTAG|GAG 2 1 68.111
137882184 GT-AG 0 1.000000099473604e-05 290 rna-XM_020748136.1 25075701 8 73016 73305 Orbicella faveolata 48498 AAG|GTAAGAGCCA...TATGTTTTGTTT/CCTAGTTTCAAA...GTCAG|TTG 0 1 76.5

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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]);