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)

6 rows where transcript_id = 27699006

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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
153875575 GT-AG 0 7.354506334890318e-05 74 rna-XM_009516687.1 27699006 1 4258934 4259007 Phytophthora sojae 67593 ACG|GTAGGCTGGC...TGGGTTATAATA/ATATCGCTGACG...GGTAG|ATC 1 1 2.347
153875576 GT-AG 0 1.000000099473604e-05 95 rna-XM_009516687.1 27699006 2 4258732 4258826 Phytophthora sojae 67593 CCG|GTGAGGAGAC...TTGTTGTTATTG/GTTGTTGTTATT...TGTAG|CAA 0 1 3.106
153875577 GT-AG 0 1.000000099473604e-05 35 rna-XM_009516687.1 27699006 3 4258553 4258587 Phytophthora sojae 67593 GTA|GTGCGTTGCT...CTGATTGTGTTC/ATTGTGTTCGGT...TGTAG|CTG 0 1 4.127
153875578 GT-AG 0 1.000000099473604e-05 76 rna-XM_009516687.1 27699006 4 4258342 4258417 Phytophthora sojae 67593 AAG|GTACGACAAC...TTTTCCTTTTCG/CTGGTGTTTACA...ACTAG|GCA 0 1 5.084
153875579 GT-AG 0 0.0007020271519666 71 rna-XM_009516687.1 27699006 5 4253885 4253955 Phytophthora sojae 67593 CAG|GTACGCCTTT...TGCAGCTTAACG/GTAGATTTCATC...CGCAG|ATT 0 1 36.184
153875580 GT-AG 0 0.000298261457027 71 rna-XM_009516687.1 27699006 6 4247475 4247545 Phytophthora sojae 67593 GCG|GTATGTCGAA...GCTTTGTTGATG/AAGTTTCTGACG...TACAG|ATG 0 1 81.132

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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]);