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 = 8933580

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Suggested facets: dinucleotide_pair, 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
48131256 GT-AG 0 1.000000099473604e-05 123 rna-XM_027293334.1 8933580 2 48141661 48141783 Coffea eugenioides 49369 CAG|GTTTTGATAT...GGTGTTTTAATT/ATTTTGTTGATT...CGCAG|GCT 0 1 18.069
48131257 GT-AG 0 1.000000099473604e-05 233 rna-XM_027293334.1 8933580 3 48140879 48141111 Coffea eugenioides 49369 ACA|GTGAGTCCTT...TGACCCTTTATG/TTATGTTTGAAC...CTTAG|GAA 0 1 30.69
48131258 GT-AG 0 0.0009323705707657 229 rna-XM_027293334.1 8933580 4 48140244 48140472 Coffea eugenioides 49369 ATG|GTATGTCTAG...TGTTCTTCAATT/TAGTTACTAATC...TAAAG|ATG 1 1 40.023
48131259 CC-GC 0 0.0728509038696115 456 rna-XM_027293334.1 8933580 5 48138933 48139388 Coffea eugenioides 49369 GGT|CCATATTTTA...CAATTGCTAATT/CAATTGCTAATT...TTGGC|GCT 1 1 59.678
48131260 TT-TA 0 1.000000099473604e-05 292 rna-XM_027293334.1 8933580 8 48138017 48138308 Coffea eugenioides 49369 TAT|TTGCAGGTAT...CCATTTTTCACA/CCATTTTTCACA...AAATA|ACA 2 1 73.977
48131261 GT-AG 0 9.321404004428816e-05 518 rna-XM_027293334.1 8933580 9 48137045 48137562 Coffea eugenioides 49369 CAT|GTAAGCCACT...TAATTTTTACTT/ATAATTTTTACT...TCCAG|AGT 0 1 84.414
48141039 GT-AG 0 1.000000099473604e-05 168 rna-XM_027293334.1 8933580 1 48141933 48142100 Coffea eugenioides 49369 AGG|GTTAGTATCG...GTTTTCTAAATT/TGTTTTCTAAAT...CGCAG|CTG   0 15.931

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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]);