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 = 26649255

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
147771755 GT-AG 0 0.0017402915153025 80 PHUM600920-RA 26649255 1 22353 22432 Pediculus humanus 121224 AAG|GTATGCAATA...TTCTTTTTAAGC/AATAATTTTATA...TACAG|ATG 1 1 9.039
147771756 GT-AG 0 1.4494125369055368e-05 92 PHUM600920-RA 26649255 2 21934 22025 Pediculus humanus 121224 CAG|GTAAGTTTTT...ATTTGTTTAAAT/ATTTGTTTAAAT...TTCAG|AAA 1 1 27.864
147771757 GT-AG 0 0.001215628153355 84 PHUM600920-RA 26649255 3 21654 21737 Pediculus humanus 121224 AAA|GTATTTGAAT...TTTTTTTTATTA/ATTTTTTTTATT...TTCAG|GTC 2 1 39.148
147771758 GT-AG 0 0.0055177959751176 89 PHUM600920-RA 26649255 4 21244 21332 Pediculus humanus 121224 CAT|GTAATTTTTA...TTATTTTTGATT/TTATTTTTGATT...GATAG|AAT 2 1 57.628
147771759 GT-AG 0 1.000000099473604e-05 111 PHUM600920-RA 26649255 5 20923 21033 Pediculus humanus 121224 AGG|GTAAGACAAC...ATAAATTTAATT/ATAAATTTAATT...TTCAG|GTG 2 1 69.718
147771760 GT-AG 0 1.000000099473604e-05 1060 PHUM600920-RA 26649255 6 19723 20782 Pediculus humanus 121224 ATG|GTTTGATGGA...TTATTATTATTT/TTTATTATTATT...AAGAG|ATG 1 1 77.778
147771761 GT-AG 0 0.0002301888806867 90 PHUM600920-RA 26649255 7 19483 19572 Pediculus humanus 121224 TTG|GTTACTATAT...ATATTTTTAATA/ATATTTTTAATA...ATTAG|GTG 1 1 86.413

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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]);