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)

7 rows where transcript_id = 8594626

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Suggested facets: dinucleotide_pair, score

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
46266526 AT-AG 0 1.000000099473604e-05 158 rna-XM_006465510.2 8594626 1 18131309 18131466 Citrus sinensis 2711 GAG|ATGCTCTGTT...CCTGCTGTACGG/AAATTAAAAACC...CCGAG|ATG 1 1 3.66
46266527 GT-AG 0 1.000000099473604e-05 99 rna-XM_006465510.2 8594626 2 18131992 18132090 Citrus sinensis 2711 AAG|GTGCGAATAA...CACACGTTGATT/CGTTGATTAATT...TGCAG|GAG 1 1 19.54
46266528 GT-AG 0 0.0001682614573656 403 rna-XM_006465510.2 8594626 3 18132163 18132565 Citrus sinensis 2711 AAG|GTATGATTAT...ATGTACTTAATT/ATGTACTTAATT...TGCAG|GAG 1 1 21.718
46266529 GT-AG 0 0.0224508167305956 779 rna-XM_006465510.2 8594626 4 18132638 18133416 Citrus sinensis 2711 CTG|GTAACTTTCT...ATGTACTTAATT/ATGTACTTAATT...TGCAG|GAG 1 1 23.896
46266530 GT-AG 0 0.0737121004773566 1086 rna-XM_006465510.2 8594626 5 18133489 18134574 Citrus sinensis 2711 CCG|GTAGCTTTCT...TTGTCATTAAAT/AAGTTTGTCATT...CTCAG|GAG 1 1 26.074
46266531 GT-AG 0 1.000000099473604e-05 2606 rna-XM_006465510.2 8594626 6 18134647 18137252 Citrus sinensis 2711 AAG|GTGCGCATGA...ATTCTTTTAAAA/ATATTACTTATT...TACAG|GGG 1 1 28.252
46266532 GT-AG 0 5.978767827121364e-05 130 rna-XM_006465510.2 8594626 7 18139245 18139374 Citrus sinensis 2711 CAG|GTTTGTTCGA...TATATCTTACTA/ATATATCTTACT...CATAG|AGT 1 1 88.506

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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]);