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)

8 rows where transcript_id = 7224273

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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
37883984 GT-AG 0 0.0102210152484768 96 gene-CFOL_v3_00118 7224273 1 152309 152404 Cephalotus follicularis 3775 CAA|GTAACTCACT...TTTTCTTTATTT/TCTTTATTTAAA...TTTAG|GTC 0 1 11.062
37883985 GT-AG 0 0.000194580112424 79 gene-CFOL_v3_00118 7224273 2 151966 152044 Cephalotus follicularis 3775 CAG|GTAAGCTCTT...TATTTCTTATTT/TTATTTCTTATT...TGTAG|GTT 0 1 30.531
37883986 GT-AG 0 2.637983951066336e-05 298 gene-CFOL_v3_00118 7224273 3 151508 151805 Cephalotus follicularis 3775 GTG|GTAAACCACC...TTATTTTTCATG/TTATTTTTCATG...GACAG|ATG 1 1 42.33
37883987 GT-AG 0 0.02617453359672 892 gene-CFOL_v3_00118 7224273 4 150437 151328 Cephalotus follicularis 3775 AAG|GTTTTCTTTT...TATTTCTGAACT/ATATTTCTGAAC...TTCAG|GTT 0 1 55.531
37883988 GT-AG 0 3.1108781658192885e-05 1609 gene-CFOL_v3_00118 7224273 5 148584 150192 Cephalotus follicularis 3775 CAG|GTTGACTTTT...CTCTCCCTATCT/ATTTGATTGATC...TTCAG|GAT 1 1 73.525
37883989 GT-AG 0 1.000000099473604e-05 124 gene-CFOL_v3_00118 7224273 6 148305 148428 Cephalotus follicularis 3775 AAA|GTAAAACATC...TTGTCCTTGGAT/GATGAACTTATT...TTTAG|GCA 0 1 84.956
37883990 GT-AG 0 0.0001180116365296 342 gene-CFOL_v3_00118 7224273 7 147873 148214 Cephalotus follicularis 3775 CAG|GTACATTATT...AGTGACTTAATC/AGTGACTTAATC...TGTAG|GAT 0 1 91.593
37883991 GT-AG 0 0.0029702424374004 113 gene-CFOL_v3_00118 7224273 8 147688 147800 Cephalotus follicularis 3775 TTG|GTACACCTTT...TGTAACTTATTT/CTGTAACTTATT...TGCAG|GGT 0 1 96.903

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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]);