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 = 32094481

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Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
179201789 GT-AG 0 1.000000099473604e-05 39 rna-XM_012338642.1 32094481 1 1241114 1241152 Saprolegnia parasitica 101203 TGG|GTACGTGGTC...AGGGTCTGGAGG/TGGAGGCTGATG...CGTAG|GCA 1 1 12.143
179201790 GT-AG 0 1.000000099473604e-05 42 rna-XM_012338642.1 32094481 2 1240992 1241033 Saprolegnia parasitica 101203 AAC|GTGCGCATCG...CCGATGATGACA/CAACGTCTCATG...CGTAG|TTG 0 1 15.893
179201791 GT-AG 0 0.0003643077038709 44 rna-XM_012338642.1 32094481 3 1240231 1240274 Saprolegnia parasitica 101203 GAG|GTAGCTGCTC...GTTACTGTATCG/TCGATGGTTACT...CCTAG|CTA 0 1 49.508
179201792 GT-AG 0 0.0185965482191991 47 rna-XM_012338642.1 32094481 4 1240144 1240190 Saprolegnia parasitica 101203 TAT|GTACTCCCTC...ACTGCATTGACA/ACTGCATTGACA...CATAG|ATG 1 1 51.383
179201793 GT-AG 0 0.005914893530368 46 rna-XM_012338642.1 32094481 5 1239868 1239913 Saprolegnia parasitica 101203 AAA|GTAACCCTCT...GCGATCGTCACA/GCGATCGTCACA...CGTAG|GCG 0 1 62.166
179201794 GT-AG 0 0.0009833472895011 56 rna-XM_012338642.1 32094481 6 1239740 1239795 Saprolegnia parasitica 101203 CAA|GTACCGCGCT...TTATTTGTGATG/AGATAATTTATT...TGTAG|GGC 0 1 65.541
179201795 GT-AG 0 0.016552959144494 48 rna-XM_012338642.1 32094481 7 1239274 1239321 Saprolegnia parasitica 101203 TGA|GTACGCTCGC...TTCTTCTTCTTC/TGTGCGCTCAGC...GCTAG|GCG 1 1 85.138
179201796 GT-AG 0 5.055996001326299e-05 44 rna-XM_012338642.1 32094481 8 1239063 1239106 Saprolegnia parasitica 101203 GAC|GTTGATTTGC...GTTTCCTCATCG/TGTTTCCTCATC...GATAG|GAC 0 1 92.968

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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]);