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 = 8392217

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Suggested facets: in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
45168953 GT-AG 0 2.5233098527264747e-05 538 rna-XM_004487502.3 8392217 1 15368643 15369180 Cicer arietinum 3827 TCT|GTAAGTCGTT...TTGCGTTTAGTT/GTGTAATTGACT...TGCAG|GTT 0 1 10.14
45168954 GT-AG 0 3.726165828759988e-05 689 rna-XM_004487502.3 8392217 2 15372073 15372761 Cicer arietinum 3827 GTG|GTATGAGTTG...TTATTATTAGCC/ATTGTTGTTATT...TGTAG|GTC 0 1 74.45
45168955 GT-AG 0 0.0014608053998 744 rna-XM_004487502.3 8392217 3 15372816 15373559 Cicer arietinum 3827 GAG|GTATGTCTTT...TTCTTCTCGATT/CTTTTTGTTATT...TGTAG|ACG 0 1 75.65
45180611 GT-AG 0 1.000000099473604e-05 402 rna-XM_004487502.3 8392217 4 15373891 15374292 Cicer arietinum 3827 CAG|GTGAAGCTCA...GTAAACTTACAA/TGTAAACTTACA...AGCAG|GAC   0 83.011
45180612 GT-AG 0 1.1572162557313712e-05 109 rna-XM_004487502.3 8392217 5 15374432 15374540 Cicer arietinum 3827 AAG|GTATGGTAAT...CTGCTCTTTGTA/AGTATGTTCATC...TGTAG|AAA   0 86.102
45180613 GT-AG 0 1.767181394871905e-05 483 rna-XM_004487502.3 8392217 6 15374685 15375167 Cicer arietinum 3827 ATG|GTACATATTT...GAATTTCCAACT/CGCAGACTTACG...TGCAG|GCG   0 89.304

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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]);