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)

9 rows where transcript_id = 8855887

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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
47813018 GT-AG 0 0.0107117343739682 1348 rna-XM_027248771.1 8855887 1 39180587 39181934 Coffea arabica 13443 AAG|GTTTCTCACT...ATTCTTTTAATG/AAGTTGTTCATC...CACAG|GTG 1 1 4.738
47813019 GT-AG 0 1.000000099473604e-05 577 rna-XM_027248771.1 8855887 2 39183624 39184200 Coffea arabica 13443 CAG|GTTTGGTTTT...TGGACATTGATT/TTTGAATTTATG...TGCAG|GAG 1 1 45.564
47813020 GT-AG 0 1.000000099473604e-05 106 rna-XM_027248771.1 8855887 3 39184461 39184566 Coffea arabica 13443 GTG|GTAATTCTAT...TTTCCTTTTATG/ATAAGTCTCATC...TATAG|GTA 0 1 51.849
47813021 GT-AG 0 2.391498386150396e-05 141 rna-XM_027248771.1 8855887 4 39184777 39184917 Coffea arabica 13443 GAG|GTATTAGTAG...CCATGCTTATTT/ACCATGCTTATT...TACAG|ATT 0 1 56.925
47813022 GT-AG 0 1.000000099473604e-05 1037 rna-XM_027248771.1 8855887 5 39185137 39186173 Coffea arabica 13443 CCT|GTGAGTATTA...CTAGTTTTAGTA/CCTAGTCTGACT...TTCAG|GTT 0 1 62.219
47813023 GT-AG 0 7.765908986570791 730 rna-XM_027248771.1 8855887 6 39187140 39187869 Coffea arabica 13443 CAG|GTATCTTTCC...TCTTCCTTACAT/TTCTTCCTTACA...TGTAG|GCA 0 1 85.569
47813024 GT-AG 0 1.168561665206286e-05 222 rna-XM_027248771.1 8855887 7 39187966 39188187 Coffea arabica 13443 GAG|GTAAATTTGC...TCATTCTCAAAA/TGTGGTCTCATT...TGCAG|GTA 0 1 87.89
47813025 GT-AG 0 1.000000099473604e-05 155 rna-XM_027248771.1 8855887 8 39188287 39188441 Coffea arabica 13443 CAG|GTTAGTGATT...GTGAGCTTATAG/AGTGATATCATT...TACAG|ATA 0 1 90.283
47813026 GT-AG 0 0.0441290450069336 484 rna-XM_027248771.1 8855887 9 39188632 39189115 Coffea arabica 13443 AAG|GTATGTTTTC...GGTTCCTTACTG/TGGTTCCTTACT...TGTAG|CCT 1 1 94.876

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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]);