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 = 1565173

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Suggested facets: dinucleotide_pair, score

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
8696944 GT-AG 0 1.000000099473604e-05 1452 rna-XM_020240610.1 1565173 1 12383004 12384455 Ananas comosus 4615 GGT|GTAAGTGAAA...GGCTCCTTACAT/GTGAGTCTGAAC...TGTAG|GTT 0 1 7.839
8696945 GT-AG 0 3.945513067542535e-05 559 rna-XM_020240610.1 1565173 2 12381998 12382556 Ananas comosus 4615 AAG|GTACTTATGT...TGAGTCTCAACA/ATGAGTCTCAAC...TGTAG|GTT 0 1 24.524
8696946 GT-AG 0 0.0001878359574786 108 rna-XM_020240610.1 1565173 3 12381434 12381541 Ananas comosus 4615 GTG|GTACTTATGT...TAACTTTTGAAG/GATACACTAACT...TGTAG|GGC 0 1 41.545
8696947 GT-AG 0 1.000000099473604e-05 349 rna-XM_020240610.1 1565173 4 12380839 12381187 Ananas comosus 4615 CAG|GTAGGAGAAA...TTTCTTTTAATC/TTTCTTTTAATC...ATCAG|GAC 0 1 50.728
8696948 GT-AG 0 0.0003685925884905 282 rna-XM_020240610.1 1565173 5 12380281 12380562 Ananas comosus 4615 CAG|GTAGCTGTCT...TAATTTGTATTT/TCACAACTTACC...AACAG|GCG 0 1 61.03
8696949 GT-AG 0 1.000000099473604e-05 196 rna-XM_020240610.1 1565173 6 12379995 12380190 Ananas comosus 4615 CAG|GTGATATTAA...GTACTTTTGATC/GTACTTTTGATC...CGTAG|GCT 0 1 64.39
8696950 GC-AG 0 1.000000099473604e-05 97 rna-XM_020240610.1 1565173 7 12379853 12379949 Ananas comosus 4615 CAG|GCAAGCATTA...TGTTTTTTATAT/TTGTTTTTTATA...TGCAG|AAG 0 1 66.069

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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]);