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)

5 rows where transcript_id = 31282396

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
174343238 GT-AG 0 1.000000099473604e-05 388 rna-JXQ802_LOCUS59 31282396 1 311469 311856 Rotaria sordida 392033 GTG|GTGAGATATC...ATTCCTTTTGTT/AAGTTTATAAAT...TTTAG|GAC 2 1 2.047
174343239 GT-AG 0 2.7428891687388886e-05 55 rna-JXQ802_LOCUS59 31282396 2 311314 311368 Rotaria sordida 392033 AAA|GTAAATATTT...TATATCTTTGTA/AAGATATTAAAA...TATAG|GTA 0 1 16.667
174343240 GT-AG 0 8.74052400476033e-05 65 rna-JXQ802_LOCUS59 31282396 3 311154 311218 Rotaria sordida 392033 TAT|GTAAATAATT...TTTTTTTTATTG/TTTTTTTTTATT...TGTAG|AAC 2 1 30.556
174343241 GT-AG 0 0.00184228479248 55 rna-JXQ802_LOCUS59 31282396 4 310997 311051 Rotaria sordida 392033 TTC|GTAAGTTTAA...TGTCTTTTAATA/TGTCTTTTAATA...ATTAG|ACC 2 1 45.468
174343242 GT-AG 0 0.0042843194999078 74 rna-JXQ802_LOCUS59 31282396 5 310816 310889 Rotaria sordida 392033 AAA|GTATTATCTT...TTATTTTTGTCT/AAAATTGTTATT...TATAG|ATA 1 1 61.111

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]);