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)

6 rows where transcript_id = 38015531

✎ 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
209850310 GT-AG 0 0.0627071980117036 238 rna-XM_028059975.1 38015531 4 38127349 38127586 Vigna unguiculata 3917 AGG|GTATGCCTTT...TTAATTTTATCT/CTTAATTTTATC...ATCAG|GTG 1 1 65.119
209850311 GT-AG 0 0.0012171255733856 79 rna-XM_028059975.1 38015531 5 38128404 38128482 Vigna unguiculata 3917 TGG|GTATGATATT...ATAATTTTGACT/TTTTGACTGATT...AACAG|GTA 2 1 86.434
209850312 GT-AG 0 1.000000099473604e-05 288 rna-XM_028059975.1 38015531 6 38128774 38129061 Vigna unguiculata 3917 CAG|GTAATTAATC...AATTTGTTAACT/AATTTGTTAACT...TGCAG|CAT 2 1 94.026
209860047 GT-AG 0 2.039871011878241e-05 341 rna-XM_028059975.1 38015531 1 38124032 38124372 Vigna unguiculata 3917 AGG|GTAATTAACC...GTATTCTTAAAT/GTTATTTTTACT...CTCAG|TTC   0 6.627
209860048 GT-AG 0 1.000000099473604e-05 76 rna-XM_028059975.1 38015531 2 38124433 38124508 Vigna unguiculata 3917 AAG|GTCGGTGCTT...TTTTTCTTCTTC/TCTTTTTCTATT...TGCAG|CTA   0 8.192
209860049 GT-AG 0 1.000000099473604e-05 647 rna-XM_028059975.1 38015531 3 38124614 38125260 Vigna unguiculata 3917 AAG|GTGGGTTTCT...GAGATATTAACT/TTGTGGTTTATT...TGCAG|TTG   0 10.931

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]);