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)

5 rows where transcript_id = 10378466

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Suggested facets: 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
57023111 GT-AG 0 1.0683379445577836e-05 2464 rna-XM_025103309.1 10378466 2 46994280 46996743 Cynara cardunculus 4265 TGG|GTTAGTTTTC...ATGCTCTTAAAT/AACTTGCTAATA...TACAG|GGG 2 1 16.794
57023112 GT-AG 0 1.000000099473604e-05 89 rna-XM_025103309.1 10378466 3 46993125 46993213 Cynara cardunculus 4265 GAA|GTAATAAATT...TTGACCTCAGTT/TTCAGTTTGACC...TGCAG|AAA 0 1 48.203
57023113 GT-AG 0 0.0025834274176531 155 rna-XM_025103309.1 10378466 4 46992685 46992839 Cynara cardunculus 4265 AAG|GTATTTAGTG...GTCACCTTGATT/ATTTTGTTCATT...GTCAG|GTT 0 1 56.6
57023114 GT-AG 0 0.0048198459818423 1130 rna-XM_025103309.1 10378466 5 46990643 46991772 Cynara cardunculus 4265 GAG|GTAGCCCATC...TGCTGTTTATTG/ATGCTGTTTATT...TGCAG|AAA 0 1 83.471
57033680 GT-AG 0 0.0262609717442323 319 rna-XM_025103309.1 10378466 1 46997273 46997591 Cynara cardunculus 4265 CAG|GTACTCTTCA...TGACTTTTGATG/AATTGACTGACT...AACAG|AAG   0 2.328

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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]);