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 = 32094435

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
179201461 GT-AG 0 1.000000099473604e-05 53 rna-XM_012338391.1 32094435 1 717383 717435 Saprolegnia parasitica 101203 GCG|GTAGGAGCTT...TCCTCCTTATAG/CTCCTCCTTATA...CGTAG|ATT 2 1 13.991
179201462 GT-AG 0 1.000000099473604e-05 56 rna-XM_012338391.1 32094435 2 718080 718135 Saprolegnia parasitica 101203 CGA|GTCCGTCGTC...AAGTTTGTATCC/AGCCGACTCATG...TGTAG|CGA 1 1 35.806
179201463 GT-AG 0 0.0260487861308021 63 rna-XM_012338391.1 32094435 3 718480 718542 Saprolegnia parasitica 101203 TGG|GTATTTTTCA...TCAATCCTGATG/CATTTTTTCAGG...GATAG|AAC 0 1 47.459
179201464 GT-AG 0 1.1770938999057963e-05 52 rna-XM_012338391.1 32094435 4 718750 718801 Saprolegnia parasitica 101203 AAG|GTAGGCTCTC...GATAAATTGATA/GATAAATTGATA...CGTAG|GTC 0 1 54.472
179201465 GT-AG 0 0.0017345147310348 65 rna-XM_012338391.1 32094435 5 719129 719193 Saprolegnia parasitica 101203 AGC|GTACGTTGTT...CAATCCGTATTG/TCCGTATTGAGA...GGTAG|GAG 0 1 65.549
179201466 GT-AG 0 1.000000099473604e-05 47 rna-XM_012338391.1 32094435 6 719347 719393 Saprolegnia parasitica 101203 CTG|GTAAAAGCCA...GATAGATTGATA/GATAGATTGATA...CGCAG|GGC 0 1 70.732
179201467 GT-AG 0 0.0004522432932345 57 rna-XM_012338391.1 32094435 7 719603 719659 Saprolegnia parasitica 101203 CGA|GTTGCTACTT...TCATCTTTGTCT/CTTTGTCTCATG...GGTAG|GTT 2 1 77.812
179201468 GT-AG 0 0.000200115422388 45 rna-XM_012338391.1 32094435 8 720219 720263 Saprolegnia parasitica 101203 GTC|GTACGTCCTC...AGTGTCTGAAAT/AAGTGTCTGAAA...TGTAG|GAC 0 1 96.748

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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]);