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 = 11121919

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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
61577757 GT-AG 0 1.000000099473604e-05 63 rna-XM_047055433.1 11121919 1 2062489 2062551 Dermatophagoides farinae 6954 TAG|GTTTGTCATT...TTTTTTTTGTTC/TTATAATTAATT...CATAG|ATT 1 1 1.259
61577758 GT-AG 0 8.952343415171443e-05 69 rna-XM_047055433.1 11121919 2 2062735 2062803 Dermatophagoides farinae 6954 AAG|GTTTGTGTTG...TTTACTTTAACC/CATGTTTTCATT...TTTAG|AAT 1 1 3.969
61577759 GT-AG 0 7.841947749003495e-05 96 rna-XM_047055433.1 11121919 3 2065824 2065919 Dermatophagoides farinae 6954 AAT|GTAAGTATCA...TTTTCATTGATT/TCGATTTTCATT...CACAG|ACA 0 1 48.689
61577760 GT-AG 0 0.0106957328866361 78 rna-XM_047055433.1 11121919 4 2067352 2067429 Dermatophagoides farinae 6954 ACC|GTAAGTTTTT...ATCTTTTTAATT/TTATTATTCATT...AACAG|AAA 1 1 69.895
61577761 GT-AG 0 0.0284971181657528 75 rna-XM_047055433.1 11121919 5 2068115 2068189 Dermatophagoides farinae 6954 CAA|GTATGTCATC...TTTTCTTTATCA/CATTTTTTTATC...AACAG|ACA 2 1 80.039
61577762 GT-AG 0 0.102758448770125 59 rna-XM_047055433.1 11121919 6 2068814 2068872 Dermatophagoides farinae 6954 TAC|GTATGTATTA...TTAATTTTAATT/TTAATTTTAATT...GATAG|ATA 2 1 89.279
61577763 GT-AG 0 9.375216205369884e-05 55 rna-XM_047055433.1 11121919 7 2069184 2069238 Dermatophagoides farinae 6954 CTG|GTAAGCTATT...TTTCCATTAATA/AATTTATTGACA...TGCAG|GGT 1 1 93.884

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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]);