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 = 15495851

✎ 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
83763370 GT-AG 0 1.000000099473604e-05 201 rna-XM_003517512.5 15495851 3 57180300 57180500 Glycine max 3847 TAG|GTAAGTGTGT...TTTTCCTTGAAT/CATTTTCTCAAT...GGCAG|GAT 1 1 23.719
83763371 GT-AG 0 2.278223416030343e-05 2749 rna-XM_003517512.5 15495851 4 57177380 57180128 Glycine max 3847 CAG|GTATGTGCTG...TTGTGCATAACT/TTGTGCATAACT...TGCAG|GCC 1 1 28.696
83763372 GT-AG 0 1.000000099473604e-05 1104 rna-XM_003517512.5 15495851 5 57174169 57175272 Glycine max 3847 GAA|GTAAGTAATA...TGACTTTTACTG/CTTTTACTGAAC...GTCAG|ATG 2 1 90.017
83763373 GT-AG 0 0.0039711181466015 211 rna-XM_003517512.5 15495851 6 57173842 57174052 Glycine max 3847 ATG|GTATAATTAA...TTCCTTTTATTT/ATTCCTTTTATT...TACAG|AGA 1 1 93.393
83763374 GT-AG 0 1.000000099473604e-05 1679 rna-XM_003517512.5 15495851 7 57172044 57173722 Glycine max 3847 GAG|GTAATAATCA...TTCACCTGATTC/TTTCACCTGATT...AGCAG|GAA 0 1 96.857
83771053 GT-AG 0 0.3371780130840591 91 rna-XM_003517512.5 15495851 1 57181568 57181658 Glycine max 3847 TTT|GTATGTTCTT...TTTTCCTTGCTT/CCTTGTGTTATT...TATAG|CCA   0 7.858
83771054 GT-AG 0 1.000000099473604e-05 490 rna-XM_003517512.5 15495851 2 57180993 57181482 Glycine max 3847 AAG|GTGATGATGG...TTAATTTTAATT/TTAATTTTAATT...TTCAG|GGC   0 10.332

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]);