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)

6 rows where transcript_id = 12917288

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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
68847715 GT-AG 0 0.0001167280675187 146 rna-XM_009645092.2 12917288 1 2692664 2692809 Egretta garzetta 188379 AAA|GTATGTGCAT...ATTTCTGTGATT/CTGTGATTAATT...TGCAG|GAT 2 1 26.774
68847716 GT-AG 0 0.0002826224457262 923 rna-XM_009645092.2 12917288 2 2692987 2693909 Egretta garzetta 188379 CAG|GTATGTGTGG...TTTTCTCTAACC/TTTTCTCTAACC...ACCAG|GTC 2 1 50.469
68847717 GT-AG 0 1.000000099473604e-05 127 rna-XM_009645092.2 12917288 3 2693985 2694111 Egretta garzetta 188379 GAG|GTAGGGTTCT...GTAATTTTGATT/GTAATTTTGATT...TGTAG|ATC 2 1 60.509
68847718 GT-AG 0 0.0035151864275578 473 rna-XM_009645092.2 12917288 4 2694214 2694686 Egretta garzetta 188379 AAG|GTATGTTTTT...TGAGTTTTCACT/TGAGTTTTCACT...TCTAG|ATC 2 1 74.163
68847719 GT-AG 0 5.135358987344115e-05 3027 rna-XM_009645092.2 12917288 5 2694741 2697767 Egretta garzetta 188379 CAG|GTAACATACT...ACTATGTTGATT/ACTATGTTGATT...AACAG|TCG 2 1 81.392
68847720 GT-AG 0 1.000000099473604e-05 829 rna-XM_009645092.2 12917288 6 2697804 2698632 Egretta garzetta 188379 AAG|GTAGGAATTG...TGCTCTTTATCT/TTGCTCTTTATC...TTCAG|TCA 2 1 86.212

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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]);