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 = 24436982

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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
133513309 GT-AG 0 1.000000099473604e-05 143 rna-XM_029788717.1 24436982 1 21802607 21802749 Octopus sinensis 2607531 TGT|GTTGGTACCA...ACTTCCTCCACA/TTTCTGGTTATC...TAAAG|ATC 1 1 17.78
133513310 GT-AG 0 1.000000099473604e-05 136 rna-XM_029788717.1 24436982 2 21803027 21803162 Octopus sinensis 2607531 GAG|GTTGGTCGAT...TCTCTTTTAGCT/ATGTTTTTCACT...TTTAG|GGT 2 1 25.299
133513311 GT-AG 0 1.000000099473604e-05 171 rna-XM_029788717.1 24436982 3 21804437 21804607 Octopus sinensis 2607531 GCA|GTGAGAACGT...AGTTTATTAACT/AGTTTATTAACT...TACAG|CGG 1 1 59.881
133513312 GT-AG 0 0.0034748953832691 369 rna-XM_029788717.1 24436982 4 21805044 21805412 Octopus sinensis 2607531 GAG|GTATGGTGTA...AGTCTCTTAATT/AGTCTCTTAATT...CGCAG|ATA 2 1 71.716
133513313 GT-AG 0 1.000000099473604e-05 13043 rna-XM_029788717.1 24436982 5 21805815 21818857 Octopus sinensis 2607531 GAG|GTCAGGCAGA...CGCACCTCGGCT/CCTCGGCTCACA...GCCAG|TTG 2 1 82.628
133513314 GT-AG 0 1.000000099473604e-05 17325 rna-XM_029788717.1 24436982 6 21819038 21836362 Octopus sinensis 2607531 GAG|GTAGGATATG...TATAATTTGAAT/TATAATTTGAAT...TACAG|GAT 2 1 87.514
133513315 GT-AG 0 1.000000099473604e-05 2412 rna-XM_029788717.1 24436982 7 21836511 21838922 Octopus sinensis 2607531 AGT|GTTGGTGGCA...TAAGTATTATTT/TTAAGTATTATT...TCAAG|CCT 0 1 91.531
133513316 GT-AG 0 1.000000099473604e-05 1403 rna-XM_029788717.1 24436982 8 21838997 21840399 Octopus sinensis 2607531 GAG|GTGAGTCTCA...GGATTTATAATT/ATGGGATTTATA...TCCAG|GAG 2 1 93.54

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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]);