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 = 20781844

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Suggested facets: score, length, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
111342202 GT-AG 0 1.000000099473604e-05 90 rna-XM_021755725.2 20781844 3 40436998 40437087 Manihot esculenta 3983 TAG|GTGAGCATTG...TCTCATTTAGCT/GTCCATCTCATT...TGTAG|GAA 1 1 50.862
111342203 GT-AG 0 1.000000099473604e-05 188 rna-XM_021755725.2 20781844 4 40436688 40436875 Manihot esculenta 3983 AAG|GTGATCATCC...ATGATTTTCATT/ATGATTTTCATT...TGCAG|GGA 0 1 54.426
111342204 GT-AG 0 1.000000099473604e-05 77 rna-XM_021755725.2 20781844 5 40436332 40436408 Manihot esculenta 3983 CGG|GTGAGTTATC...CTAACCATAATA/ATAAATCTAACT...AACAG|GAC 0 1 62.577
111342205 GT-AG 0 1.000000099473604e-05 272 rna-XM_021755725.2 20781844 6 40435676 40435947 Manihot esculenta 3983 GAG|GTAGTAAAAC...TTGTTCTAACCT/TTTGTTCTAACC...TGCAG|GTG 0 1 73.795
111342206 GT-AG 0 1.000000099473604e-05 86 rna-XM_021755725.2 20781844 7 40435480 40435565 Manihot esculenta 3983 TAG|GTAGTGCATA...TGTTCCTCAATC/ATGTTCCTCAAT...TGCAG|ATA 2 1 77.008
111342207 GT-AG 0 0.0002399309414909 90 rna-XM_021755725.2 20781844 8 40435161 40435250 Manihot esculenta 3983 TTG|GTATTTAGCA...TACATTTTTTCA/AGCTCTCTCAAG...TGCAG|GTT 0 1 83.699
111351988 GT-AG 0 1.000000099473604e-05 124 rna-XM_021755725.2 20781844 1 40439219 40439342 Manihot esculenta 3983 AAG|GTTAAAAGAC...TTTGCTTTGTCT/TTTTTCCTCAGA...TCAAG|CCA   0 3.36
111351989 GT-AG 0 1.000000099473604e-05 429 rna-XM_021755725.2 20781844 2 40438635 40439063 Manihot esculenta 3983 AAG|GTAAAGCCTG...TGTTTCTTATGA/ATCATTTTCACT...TGCAG|AAT   0 7.888

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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]);