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 = 8855950

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
47813695 GT-AG 0 1.000000099473604e-05 1219 rna-XM_027257918.1 8855950 1 47405647 47406865 Coffea arabica 13443 CAG|GTACTTGAAC...CTTCCCTTTCCT/CCTGTGTTGATT...TTCAG|GCC 2 1 23.377
47813696 GT-AG 0 1.000000099473604e-05 103 rna-XM_027257918.1 8855950 2 47408535 47408637 Coffea arabica 13443 TCT|GTGAGTATGA...ATTTTCTTTTCC/GATCATCTCATT...CCCAG|GAA 0 1 79.516
47813697 GT-AG 0 0.0049387612914588 91 rna-XM_027257918.1 8855950 3 47408780 47408870 Coffea arabica 13443 CAG|GTACTTTTTG...TTTTTCTGAACA/GATTTTCTCACT...AGCAG|CTC 1 1 84.292
47813698 GT-AG 0 0.0753400295754567 311 rna-XM_027257918.1 8855950 4 47408966 47409276 Coffea arabica 13443 GCA|GTATGTCTTC...TGATACTTGATT/TTGAAACTGATA...CTCAG|GCT 0 1 87.487
47813699 GT-AG 0 1.000000099473604e-05 636 rna-XM_027257918.1 8855950 5 47409343 47409978 Coffea arabica 13443 TAT|GTGAGTATAA...TTTTTCTTTTTC/TTCTTTTTCATT...TGCAG|AGG 0 1 89.707
47813700 GT-AG 0 0.1543599659626756 1345 rna-XM_027257918.1 8855950 6 47410069 47411413 Coffea arabica 13443 TAT|GTATGTTTAT...TCTTCCTTACAA/TTCTTCCTTACA...TTTAG|GTG 0 1 92.735
47813701 GT-AG 0 1.000000099473604e-05 478 rna-XM_027257918.1 8855950 7 47411591 47412068 Coffea arabica 13443 AAG|GTACTGGTGC...TCTTTCTTACTG/ATCTTTCTTACT...TATAG|GAA 0 1 98.688

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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]);