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 = 11132739

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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
61608207 GT-AG 0 6.999637978180706e-05 54 rna-XM_027350043.1 11132739 1 2333551 2333604 Dermatophagoides pteronyssinus 6956 CAA|GTAAGTTTGT...AACATTTTAAAG/TTATAATTTATA...CTTAG|AAT 2 1 1.307
61608208 GT-AG 0 2.0594539496281707e-05 59 rna-XM_027350043.1 11132739 2 2333227 2333285 Dermatophagoides pteronyssinus 6956 GAT|GTAAGTTGGC...TTCTATTTGATG/TTCTATTTGATG...TATAG|GAC 0 1 3.952
61608209 GT-AG 0 1.000000099473604e-05 60 rna-XM_027350043.1 11132739 3 2333069 2333128 Dermatophagoides pteronyssinus 6956 AAA|GTAAGTCGTT...TGTTTTTTCACT/TGTTTTTTCACT...TCTAG|ATG 2 1 4.93
61608210 GT-AG 0 1.000000099473604e-05 91 rna-XM_027350043.1 11132739 4 2324801 2324891 Dermatophagoides pteronyssinus 6956 TTG|GTAATGATTC...GTTTTTTTATTG/TGTTTTTTTATT...TTTAG|GTT 1 1 86.537
61608211 GT-AG 0 1.000000099473604e-05 60 rna-XM_027350043.1 11132739 5 2323833 2323892 Dermatophagoides pteronyssinus 6956 AAG|GTAGGTGTAT...TTATTATTAAAA/CTAAAATTCATC...CATAG|GCA 0 1 95.599
61608212 GT-AG 0 0.0044265649302065 75 rna-XM_027350043.1 11132739 6 2323619 2323693 Dermatophagoides pteronyssinus 6956 ATG|GTATTTCAGA...TTTGCTTTATTT/CTTTATTTCACA...TTTAG|AAA 1 1 96.986
61608213 GT-AG 0 0.0143484472555891 74 rna-XM_027350043.1 11132739 7 2323343 2323416 Dermatophagoides pteronyssinus 6956 TAC|GTATGTTCAA...CATTATTTGATT/ATCATTTTCATT...TATAG|TTG 2 1 99.002

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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]);