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 = 11121928

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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
61577829 GT-AG 0 1.000000099473604e-05 52 rna-XM_047063501.1 11121928 1 5602505 5602556 Dermatophagoides farinae 6954 AAG|GTTTGTAAAT...TAATTTTCAACC/CCGGTATTAATT...CACAG|GAT 0 1 2.014
61577830 GT-AG 0 0.0001427705500001 60 rna-XM_047063501.1 11121928 2 5602124 5602183 Dermatophagoides farinae 6954 GAT|GTAAATAGTA...TTTACCTTATAA/ACTTTTTTTACT...AACAG|TCT 0 1 7.146
61577831 GT-AG 0 1.428013873457676e-05 97 rna-XM_047063501.1 11121928 3 5600197 5600293 Dermatophagoides farinae 6954 CAG|GTAGGATTTT...TTCTTTTTAAAA/TTTCCTTTTACT...CAAAG|ATG 0 1 36.403
61577832 GT-AG 0 1.000000099473604e-05 122 rna-XM_047063501.1 11121928 4 5600042 5600163 Dermatophagoides farinae 6954 TCT|GTGAGTGTGG...TTTTTTCTAATT/TTTTTTCTAATT...TGCAG|ATT 0 1 36.93
61577833 GT-AG 0 0.864747834519162 58 rna-XM_047063501.1 11121928 5 5599702 5599759 Dermatophagoides farinae 6954 AGA|GTATGTTTTC...ATGTTTTTAAAT/ATTTTTTTCACC...AATAG|ACA 0 1 41.439
61577834 GT-AG 0 5.561402320713998e-05 95 rna-XM_047063501.1 11121928 6 5596723 5596817 Dermatophagoides farinae 6954 CAA|GTAAGCAAGC...CTGTTTTTAATG/TGGGTTCTAATT...AATAG|GTG 1 1 87.546
61577835 GT-AG 0 1.000000099473604e-05 55 rna-XM_047063501.1 11121928 7 5596284 5596338 Dermatophagoides farinae 6954 AAA|GTAAGTGTTT...CTAACCTTGCTA/ACTAATCTAACC...TTTAG|GAA 1 1 93.685

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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]);