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 = 29247646

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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
163024794 GT-AG 0 1.000000099473604e-05 343 rna-gnl|WGS:VZTP|PRUFUL_R10885_mrna 29247646 1 618 960 Prunella fulvescens 670355 TGT|GTAAGTGCAG...TCCTCCCCATCT/CTCCTCCCCATC...CCCAG|GCT 0 1 8.278
163024795 GT-AG 0 1.000000099473604e-05 987 rna-gnl|WGS:VZTP|PRUFUL_R10885_mrna 29247646 2 1117 2103 Prunella fulvescens 670355 GAG|GTACTGAGGC...TCCTCCTCACTT/TTCCTCCTCACT...TCCAG|TCC 0 1 25.497
163024796 GT-AG 0 1.000000099473604e-05 430 rna-gnl|WGS:VZTP|PRUFUL_R10885_mrna 29247646 3 2134 2563 Prunella fulvescens 670355 CAG|GTAATGCCCC...CTGCTCTTGCCC/CCAGCTCTAACC...GCCAG|GAC 0 1 28.808
163024797 GT-AG 0 1.000000099473604e-05 2684 rna-gnl|WGS:VZTP|PRUFUL_R10885_mrna 29247646 4 2726 5409 Prunella fulvescens 670355 CAG|GTGGAGACAG...GGGCCCGGAGCC/CGCTGTGTGATG...AGGAG|CCG 0 1 46.689
163024798 GT-AG 0 1.000000099473604e-05 1661 rna-gnl|WGS:VZTP|PRUFUL_R10885_mrna 29247646 5 5546 7206 Prunella fulvescens 670355 ACG|GTAGGGTCCG...CTCACCTTGGCT/CAGATCCTCACC...TGCAG|ACC 1 1 61.7
163024799 GT-AG 0 1.341473081605178e-05 244 rna-gnl|WGS:VZTP|PRUFUL_R10885_mrna 29247646 6 7342 7585 Prunella fulvescens 670355 AAG|GTAACAAATC...TGACCCCTGATG/CCCCATCTGACC...TGCAG|CTC 1 1 76.6
163024800 GT-AG 0 1.000000099473604e-05 273 rna-gnl|WGS:VZTP|PRUFUL_R10885_mrna 29247646 7 7651 7923 Prunella fulvescens 670355 AAG|GTGAGTGCCA...GTGGCTTTTTCC/CAAGGGTTCAAG...GCCAG|ATC 0 1 83.775

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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]);