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 = 11121915

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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
61577723 GT-AG 0 0.0190770013422485 93 rna-XM_047062893.1 11121915 1 1976199 1976291 Dermatophagoides farinae 6954 TTG|GTATGTTTTG...TTGTTGTTATTC/TTTGTTGTTATT...CACAG|GAT 1 1 0.496
61577724 GT-AG 0 0.6466105843074188 66 rna-XM_047062893.1 11121915 2 1976511 1976576 Dermatophagoides farinae 6954 TCG|GTATGTTTTT...TTTTTCTTAAAT/AGATTATTCATT...AATAG|CGA 1 1 3.694
61577725 GT-AG 0 0.0091510851668452 61 rna-XM_047062893.1 11121915 3 1977200 1977260 Dermatophagoides farinae 6954 AAA|GTATGTATTC...CATATTTTAATT/ATATTTTTCATA...TACAG|GAT 0 1 12.79
61577726 GT-AG 0 1.1660859882976989e-05 279 rna-XM_047062893.1 11121915 5 1980116 1980394 Dermatophagoides farinae 6954 AAT|GTTGGCCATA...TTATTCTGAATG/TTTATTCTGAAT...AACAG|AAT 0 1 54.446
61577727 GT-AG 0 1.000000099473604e-05 71 rna-XM_047062893.1 11121915 6 1981067 1981137 Dermatophagoides farinae 6954 AAG|GTAATAAGTC...GTTTCATTAATT/TTTTGTTTCATT...TGAAG|GAT 0 1 64.258
61577728 GT-AG 0 0.0001196433770533 65 rna-XM_047062893.1 11121915 7 1982588 1982652 Dermatophagoides farinae 6954 ATG|GTAAGCTATC...TTCTATTTAATC/TTCTATTTAATC...TTAAG|GCT 1 1 85.429
61577729 GT-AG 0 8.250935006209115e-05 72 rna-XM_047062893.1 11121915 8 1983196 1983267 Dermatophagoides farinae 6954 AAG|GTATGGTTAA...TCTGTCTTTTCT/TTTTCTATTATA...ATTAG|GCA 1 1 93.357

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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]);