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)

8 rows where transcript_id = 11121883

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Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
61577458 GT-AG 0 0.000264347643031 894 rna-XM_047061685.1 11121883 1 11269904 11270797 Dermatophagoides farinae 6954 TTG|GTAAGCCCTA...TTTTTTTTAATT/TTTTTTTTAATT...GACAG|CCA 0 1 2.308
61577459 GT-AG 0 1.000000099473604e-05 58 rna-XM_047061685.1 11121883 2 11270953 11271010 Dermatophagoides farinae 6954 TAG|GTAGGGTTTT...CAGTTATTAATG/CAGTTATTAATG...TATAG|GCC 2 1 3.562
61577460 GT-AG 0 0.0475714331720523 77 rna-XM_047061685.1 11121883 3 11274099 11274175 Dermatophagoides farinae 6954 TCG|GTATGTTTAT...TTGTTTTTATTC/TTTGTTTTTATT...TTTAG|AAA 0 1 28.564
61577461 GT-AG 0 0.0003627478760212 902 rna-XM_047061685.1 11121883 4 11274467 11275368 Dermatophagoides farinae 6954 TTT|GTAAGTATCT...TCTTTTTTATTT/TTCTTTTTTATT...CATAG|AAT 0 1 30.921
61577462 GT-AG 0 1.000000099473604e-05 72 rna-XM_047061685.1 11121883 5 11283322 11283393 Dermatophagoides farinae 6954 AGA|GTAAGTGAAT...ATAAATTTATCT/CATAAATTTATC...TTTAG|TTT 0 1 95.312
61577463 GT-AG 0 3.209194911639222e-05 57 rna-XM_047061685.1 11121883 6 11283512 11283568 Dermatophagoides farinae 6954 GAG|GTAATTATTG...AAATTTTTATTG/AAAATTTTTATT...AACAG|TTA 1 1 96.268
61577464 GT-AG 0 0.0039177667435148 58 rna-XM_047061685.1 11121883 7 11283685 11283742 Dermatophagoides farinae 6954 AAA|GTATGTTAAA...ATTTATTTGATT/ATTTTGTTTATT...TACAG|ATT 0 1 97.207
61577465 GT-AG 0 7.315608264409922 65 rna-XM_047061685.1 11121883 8 11283888 11283952 Dermatophagoides farinae 6954 TTT|GTATGCTTAA...TTTTTTTTAATG/GTTTTATTCATT...TATAG|CTT 1 1 98.381

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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]);