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 = 11478696

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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
63112985 GT-AG 0 0.0004679898734228 665 rna-DGYR_LOCUS71 11478696 1 419077 419741 Dimorphilus gyrociliatus 2664684 GCA|GTGGCGCCTC...TTGTCTTTAATT/TAAATTTTCATT...TACAG|TTC 1 1 0.682
63112986 GT-AG 0 6.265333851406793e-05 87 rna-DGYR_LOCUS71 11478696 2 419864 419950 Dimorphilus gyrociliatus 2664684 AAA|GTACGTGTAT...CATTTCCTAATA/CATTTCCTAATA...TGCAG|AAT 0 1 4.01
63112987 GT-AG 0 1.000000099473604e-05 855 rna-DGYR_LOCUS71 11478696 3 421989 422843 Dimorphilus gyrociliatus 2664684 TCG|GTGAGTTAAA...TATATATTAACT/TATATATTAACT...CCCAG|GCA 1 1 59.602
63112988 GT-AG 0 0.0031946059376047 82 rna-DGYR_LOCUS71 11478696 4 423012 423093 Dimorphilus gyrociliatus 2664684 CGA|GTAAGCATTT...ATCACTTTAACA/ATCACTTTAACA...AATAG|TTC 1 1 64.184
63112989 GT-AG 0 1.000000099473604e-05 351 rna-DGYR_LOCUS71 11478696 5 423128 423478 Dimorphilus gyrociliatus 2664684 CAG|GTAAGATACA...CTTTTTTTCATT/CTTTTTTTCATT...GACAG|ATA 2 1 65.112
63112990 GT-AG 0 0.0043736701191841 217 rna-DGYR_LOCUS71 11478696 6 423625 423841 Dimorphilus gyrociliatus 2664684 ACT|GTACGTTTGT...TCTATCTTGCAT/TTAAATTTCACG...TGCAG|TTA 1 1 69.094
63112991 GT-AG 0 1.000000099473604e-05 94 rna-DGYR_LOCUS71 11478696 7 424655 424748 Dimorphilus gyrociliatus 2664684 CAG|GTCAATTGCT...TTGATTCTAACT/TTGATTCTAACT...AACAG|ATG 1 1 91.271

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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]);