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 = 32077071

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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
179147044 GT-AG 0 6.907617042565165e-05 45 rna-XM_008605810.1 32077071 1 1059958 1060002 Saprolegnia diclina 112098 ACG|GTACAGTCTA...TGTTTCCTACCA/TTGACGCTCATG...ATTAG|GCC 1 1 16.866
179147045 GT-AG 0 1.3367566075741037e-05 49 rna-XM_008605810.1 32077071 2 1059741 1059789 Saprolegnia diclina 112098 TCG|GTACGCGATC...AGCCCAATAAAT/CTTTGACCCAAC...GGTAG|CAC 1 1 23.548
179147046 GT-AG 0 0.0014715278387643 46 rna-XM_008605810.1 32077071 3 1059338 1059383 Saprolegnia diclina 112098 CCC|GTACGCGCGT...TCCTCTTGAACC/TGGATTCTAACA...TGTAG|ATG 1 1 37.749
179147047 GT-AG 0 0.165357930289702 55 rna-XM_008605810.1 32077071 4 1058719 1058773 Saprolegnia diclina 112098 CCG|GTACCTATTT...TAATCCTAATCC/CTAATCCTAATC...TTTAG|GTA 1 1 60.183
179147048 GT-AG 0 1.000000099473604e-05 49 rna-XM_008605810.1 32077071 5 1058358 1058406 Saprolegnia diclina 112098 CGG|GTGCGTACTT...TGAGTTTTGATG/TGAGTTTTGATG...TCTAG|ATG 1 1 72.593
179147049 GT-AG 0 1.000000099473604e-05 46 rna-XM_008605810.1 32077071 6 1058213 1058258 Saprolegnia diclina 112098 ATG|GTAGAGTCTT...CGTGCCGGGATA/CCGGGATAGATG...CATAG|GCA 1 1 76.531
179147050 GT-AG 0 0.0191717407911285 60 rna-XM_008605810.1 32077071 7 1057843 1057902 Saprolegnia diclina 112098 CCG|GTACACTGAA...GAATTCTTGATA/TTGAAACTTATT...TGTAG|CTG 2 1 88.862

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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]);