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 = 529111

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
2994175 GT-AG 0 1.000000099473604e-05 159 rna-XM_031699072.1 529111 2 189199 189357 Actinia tenebrosa 6105 AAG|GTAAGCCAAC...GGAATTTTGTTT/AACTGTTTCATT...TGCAG|ATG 1 1 15.347
2994176 GT-AG 0 1.000000099473604e-05 388 rna-XM_031699072.1 529111 3 189477 189864 Actinia tenebrosa 6105 AGG|GTACGATATT...ACACTTTTATTG/TTTTTCCTCATG...TATAG|GAG 0 1 19.791
2994177 GT-AG 0 0.0001650638260056 337 rna-XM_031699072.1 529111 4 190027 190363 Actinia tenebrosa 6105 ATG|GTATGTACCA...ATCTGTTTAAAA/ATGGATTTCAAT...TTTAG|AAT 0 1 25.84
2994178 GT-AG 0 6.6566416901788745 948 rna-XM_031699072.1 529111 5 190517 191464 Actinia tenebrosa 6105 CAG|GTATCTTTTA...TGAACCATAACA/CATAACATAATT...TTTAG|ATG 0 1 31.553
2994179 GT-AG 0 1.000000099473604e-05 287 rna-XM_031699072.1 529111 6 191747 192033 Actinia tenebrosa 6105 AAG|GTATAGCAAG...GAATTATTAGAT/ATTAGAATTATT...TACAG|AAT 0 1 42.084
2994180 GT-AG 0 1.000000099473604e-05 859 rna-XM_031699072.1 529111 7 192146 193004 Actinia tenebrosa 6105 ATG|GTAAGAAATC...CACATTTTCATT/CACATTTTCATT...GACAG|TTC 1 1 46.266
2994491 GT-AG 0 1.000000099473604e-05 629 rna-XM_031699072.1 529111 1 188333 188961 Actinia tenebrosa 6105 AAG|GTGAGCTCTT...ATGTATTTAATT/ATGTATTTAATT...TTTAG|AAA   0 7.02

Advanced export

JSON shape: default, array, newline-delimited, object

CSV options: 

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]);