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 = 7224233

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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
37883693 GT-AG 0 0.00427126971122 27378 gene-CFOL_v3_00044 7224233 1 1211659 1239036 Cephalotus follicularis 3775 CTG|GTATGTTCTT...ACATTCTTCATT/TTCATTTTCATT...AACAG|TAT 2 1 25.273
37883694 GT-AG 0 0.0202182690068274 258 gene-CFOL_v3_00044 7224233 2 1211325 1211582 Cephalotus follicularis 3775 AGT|GTATGTCACC...TCATTTTTAACA/TCATTTTTAACA...CCCAG|GGA 0 1 35.656
37883695 GT-AG 0 1.000000099473604e-05 83 gene-CFOL_v3_00044 7224233 3 1211177 1211259 Cephalotus follicularis 3775 AAG|GTACTAGCGA...AAATCCTTCGGG/GTAAAGTTAAAT...TGCAG|GCA 2 1 44.536
37883696 GT-AG 0 1.000000099473604e-05 86 gene-CFOL_v3_00044 7224233 4 1210991 1211076 Cephalotus follicularis 3775 AGG|GTAAAATCAG...ACTATTTTGAAC/AAGTTTCTAATT...CACAG|AAC 0 1 58.197
37883697 GT-AG 0 1.000000099473604e-05 274 gene-CFOL_v3_00044 7224233 5 1210675 1210948 Cephalotus follicularis 3775 AAG|GTAAGCCCCA...ACTATTTTACTT/AACTATTTTACT...TACAG|GAT 0 1 63.934
37883698 GT-AG 0 1.000000099473604e-05 118 gene-CFOL_v3_00044 7224233 6 1210515 1210632 Cephalotus follicularis 3775 AAG|GTGAAATTTC...GTGCGCTTAATA/AATATTTTGAAC...CTCAG|GTG 0 1 69.672
37883699 GT-AG 0 1.000000099473604e-05 125 gene-CFOL_v3_00044 7224233 7 1210277 1210401 Cephalotus follicularis 3775 TAG|GTTAGCTGGA...AATTTCTAATCG/TAATTTCTAATC...TGCAG|CAA 2 1 85.109

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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]);