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 = 25340377

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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
139664764 GT-AG 0 1.000000099473604e-05 11571 rna-XM_007953447.1 25340377 1 31431583 31443153 Orycteropus afer 9818 TGG|GTCAGTGAGG...ATTTTTTTAATT/ATTTTTTTAATT...ATTAG|AAA 1 1 2.267
139664765 GT-AG 0 3.6819875949348166e-05 7207 rna-XM_007953447.1 25340377 2 31443381 31450587 Orycteropus afer 9818 GCA|GTAAGTATTA...TTGCTTTTGTCT/ATGAAATTGAAG...TACAG|GGG 0 1 16.176
139664766 GT-AG 0 0.0012891252796933 113 rna-XM_007953447.1 25340377 3 31450762 31450874 Orycteropus afer 9818 CAT|GTACTACTTG...ATTTTCTTAAAG/TTTATTTTTATT...TTAAG|TCA 0 1 26.838
139664767 GT-AG 0 0.0093704257700873 24340 rna-XM_007953447.1 25340377 4 31451069 31475408 Orycteropus afer 9818 ACA|GTATGTATAT...CTTTGTTTAATT/CTTTGTTTAATT...TTTAG|AAT 2 1 38.725
139664768 GT-AG 0 1.000000099473604e-05 4658 rna-XM_007953447.1 25340377 5 31475566 31480223 Orycteropus afer 9818 TTT|GTGAGTTGAA...ATGTCTTTTTCT/TTCTTTCTGATA...CCAAG|GAA 0 1 48.346
139664769 GT-AG 0 1.000000099473604e-05 4439 rna-XM_007953447.1 25340377 6 31480364 31484802 Orycteropus afer 9818 GAG|GTAGGTTATA...TTATGTTTATTT/GTTATGTTTATT...TGTAG|GCT 2 1 56.924
139664770 GT-AG 0 0.000199457088246 711 rna-XM_007953447.1 25340377 7 31484996 31485706 Orycteropus afer 9818 GTG|GTAAACAATT...TTTACTTTATTT/TTTTACTTTATT...TGTAG|ATG 0 1 68.75
139664771 GT-AG 0 2.531740064631052e-05 4683 rna-XM_007953447.1 25340377 8 31485872 31490554 Orycteropus afer 9818 ATG|GTAATTATTC...GTTTCCTTTCTT/ACCGATTTGAAA...AATAG|GCT 0 1 78.86

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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]);