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 = 4118540

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Suggested facets: phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
21286886 GT-AG 0 4.214231097034405e-05 580 rna-XM_006675603.1 4118540 1 2676701 2677280 Batrachochytrium dendrobatidis 109871 AAG|GTATTGATAC...CCAACTTTAAAC/CTTGTTCTCATT...TCTAG|TCC 0 1 0.66
21286887 GT-AG 0 0.0044629980932586 86 rna-XM_006675603.1 4118540 2 2677411 2677496 Batrachochytrium dendrobatidis 109871 AAG|GTATATTCTT...TTTTGTTTGATC/TTTTGTTTGATC...CTTAG|GTC 1 1 4.232
21286888 GT-AG 0 0.0019191664597912 68 rna-XM_006675603.1 4118540 3 2678055 2678122 Batrachochytrium dendrobatidis 109871 ATG|GTACGTTGTG...TCTTTTTTGATT/TCTTTTTTGATT...AATAG|AAA 1 1 19.566
21286889 GT-AG 0 0.0003052799182201 113 rna-XM_006675603.1 4118540 4 2679484 2679596 Batrachochytrium dendrobatidis 109871 TTG|GTATATAGTC...ATTCTTGTGAAA/ATTTGTTTCAAA...CTTAG|GTT 0 1 56.966
21286890 GT-AG 0 0.0001601309230543 99 rna-XM_006675603.1 4118540 5 2679796 2679894 Batrachochytrium dendrobatidis 109871 AAT|GTAGGTTAAG...GTGTCTTTATAT/TGATGTCTGATA...TCTAG|TGC 1 1 62.435
21286891 GT-AG 0 0.0002825045665753 39 rna-XM_006675603.1 4118540 6 2680108 2680146 Batrachochytrium dendrobatidis 109871 CAA|GTGCCGTTGC...CTGATTTGGACG/CTGTTGCTGATT...TCCAG|ACT 1 1 68.288
21286892 GT-AG 0 0.0010585488500047 84 rna-XM_006675603.1 4118540 7 2680700 2680783 Batrachochytrium dendrobatidis 109871 AAA|GTACGTATTT...TACACTTTATAT/TCTATTTTTATA...CTTAG|ATT 2 1 83.484
21286893 GT-AG 0 1.000000099473604e-05 71 rna-XM_006675603.1 4118540 8 2681133 2681203 Batrachochytrium dendrobatidis 109871 AAA|GTAAGATGAA...CTTTGCTTATTT/ACTTTGCTTATT...TTTAG|GCA 0 1 93.075

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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]);