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 = 10143874

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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
55681758 GT-AG 0 1.000000099473604e-05 767 rna-XM_023695738.1 10143874 2 5559381 5560147 Cucurbita pepo 3663 CAG|GTTCGTCAAT...CATGTCTTAATG/CATGTCTTAATG...TTCAG|GTC 1 1 4.426
55681759 GT-AG 0 1.000000099473604e-05 1362 rna-XM_023695738.1 10143874 3 5557573 5558934 Cucurbita pepo 3663 GAG|GTCAGTGCTG...CATATTTTAAAG/AAAATTTTGAAC...TACAG|GTT 0 1 17.162
55681760 GT-AG 0 1.000000099473604e-05 750 rna-XM_023695738.1 10143874 4 5556640 5557389 Cucurbita pepo 3663 AAG|GTTATGCTCA...TGGTTTTTAACT/TGGTTTTTAACT...TGTAG|GCT 0 1 22.387
55681761 GT-AG 0 0.0107672009753271 106 rna-XM_023695738.1 10143874 5 5556426 5556531 Cucurbita pepo 3663 CAG|GTAACTATTC...ATCTTCTTAATC/ATCTTCTTAATC...TGCAG|GTG 0 1 25.471
55681762 GT-AG 0 1.000000099473604e-05 81 rna-XM_023695738.1 10143874 6 5556141 5556221 Cucurbita pepo 3663 AAG|GTCATTCCTG...TAAGTTTTGATC/TAAGTTTTGATC...TGCAG|ATT 0 1 31.296
55681763 GT-AG 0 0.0738270358074321 79 rna-XM_023695738.1 10143874 7 5554206 5554284 Cucurbita pepo 3663 AAG|GTATACTCGG...TTTCTTTTACCT/TTTTACCTCATA...TTCAG|GCC 2 1 84.295
55693028 GT-AG 0 3.0359594951307487e-05 126 rna-XM_023695738.1 10143874 1 5560386 5560511 Cucurbita pepo 3663 AAG|GTCACTAGTT...TCTGCTTTATCA/TTCTGCTTTATC...TGTAG|TTC   0 2.256

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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]);