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 = 19586966

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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
104999403 GT-AG 0 1.000000099473604e-05 2540 rna-XM_013924370.2 19586966 1 185482 188021 Limulus polyphemus 6850 AAG|GTGAGATTTT...TAATAATTATTT/TTAATAATTATT...TACAG|ATA 1 1 11.728
104999404 GT-AG 0 1.000000099473604e-05 2565 rna-XM_013924370.2 19586966 2 188209 190773 Limulus polyphemus 6850 AAG|GTTGGCATTT...TTTTCTTTCTTT/TTATGTGTTATT...ACAAG|GAT 2 1 28.219
104999405 GT-AG 0 1.000000099473604e-05 4221 rna-XM_013924370.2 19586966 3 190920 195140 Limulus polyphemus 6850 AAG|GTAATGTTTT...ACATTGTTAACG/ACATTGTTAACG...TTCAG|CTA 1 1 41.093
104999406 GT-AG 0 1.000000099473604e-05 1389 rna-XM_013924370.2 19586966 4 195285 196673 Limulus polyphemus 6850 AAG|GTAAATTGCT...AAGTCATTGATT/CATTGATTAATT...TGCAG|CTG 1 1 53.792
104999407 GT-AG 0 1.000000099473604e-05 1474 rna-XM_013924370.2 19586966 5 196731 198204 Limulus polyphemus 6850 CAG|GTAAATATAT...TTTTTCTTTCCT/GATATATTAATT...TTTAG|GTG 1 1 58.818
104999408 GT-AG 0 1.000000099473604e-05 2473 rna-XM_013924370.2 19586966 6 198273 200745 Limulus polyphemus 6850 GAT|GTAAGTGAGA...CTATTATTATCT/ATTATCTTCAAG...TATAG|CAA 0 1 64.815
104999409 GT-AG 0 1.000000099473604e-05 2631 rna-XM_013924370.2 19586966 7 200859 203489 Limulus polyphemus 6850 ATC|GTGAGTCCTT...TTTTTTTTTTCT/CTTTGTTTGAAA...CATAG|GAA 2 1 74.78
104999410 GT-AG 0 4.749905162706892e-05 5601 rna-XM_013924370.2 19586966 8 203654 209254 Limulus polyphemus 6850 ACA|GTAGGTGTTG...TTTTCTTTTTCA/TTCTTTTTCAAT...TATAG|AGG 1 1 89.242

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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]);