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 = 18602162

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
99340147 GT-AG 0 2.427151337622405 452 rna-XM_020684449.2 18602162 2 2575985 2576436 Jatropha curcas 180498 AGA|GTATGCTCCT...TATTCCTTACTC/TTATTCCTTACT...TGCAG|ATT 0 1 29.888
99340148 GT-AG 0 0.0086436360338953 129 rna-XM_020684449.2 18602162 3 2576722 2576850 Jatropha curcas 180498 CAG|GTACTCTTGT...GGATCCTTATGT/GTTGTGCTGATT...GTCAG|ATC 0 1 41.719
99340149 GT-AG 0 0.0007168115831897 508 rna-XM_020684449.2 18602162 4 2577169 2577676 Jatropha curcas 180498 GAG|GTACATTTCT...GTTATCATAATT/ATGGTATTAATT...TGTAG|GTT 0 1 54.919
99340150 GT-AG 0 1.000000099473604e-05 683 rna-XM_020684449.2 18602162 5 2577905 2578587 Jatropha curcas 180498 AAG|GTATAAACAA...AGAAGCTAAAAA/GAGAAGCTAAAA...AACAG|TTC 0 1 64.384
99340151 GT-AG 0 0.0002992897297654 440 rna-XM_020684449.2 18602162 6 2578689 2579128 Jatropha curcas 180498 AAG|GTACATCTTT...CCTTCATTAATT/CCTTCATTAATT...CACAG|GCA 2 1 68.576
99340152 GT-AG 0 0.0007258444254614 257 rna-XM_020684449.2 18602162 7 2579223 2579479 Jatropha curcas 180498 CAG|GTAACTCCAA...TTCACCTTAAAA/AAGTTTTTCAAC...AACAG|GAA 0 1 72.478
99340153 GT-AG 0 1.000000099473604e-05 132 rna-XM_020684449.2 18602162 8 2579948 2580079 Jatropha curcas 180498 CTG|GTAAGTTACA...ATTTCTTTCACC/ATTTCTTTCACC...TCCAG|CAT 0 1 91.905
99341236 GT-AG 0 6.234606120384945e-05 351 rna-XM_020684449.2 18602162 1 2575150 2575500 Jatropha curcas 180498 AAG|GTACTTGCTA...ATTGTTTTATTT/GTTTTATTTACT...CGCAG|CAA   0 9.963

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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]);