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 = 32241344

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
180024457 GT-AG 0 1.000000099473604e-05 977 rna-XM_035733475.1 32241344 1 210224 211200 Schistosoma haematobium 6185 GAT|GTAAGTAAAA...TATTTTTTATTA/ATATTTTTTATT...ATTAG|AAC 2 1 4.288
180024458 GT-AG 0 4.8118394752081374e-05 4542 rna-XM_035733475.1 32241344 2 211394 215935 Schistosoma haematobium 6185 CGT|GTAAGTCTTT...ATTTATTTATCT/TATTTATTTATC...TCTAG|CAT 0 1 17.635
180024459 GT-AG 0 0.0007870412359624 4192 rna-XM_035733475.1 32241344 3 216181 220372 Schistosoma haematobium 6185 TAT|GTAAGTTTTT...TTTTATTTAATG/ATTTTATTTAAT...TCCAG|TTG 2 1 34.578
180024460 GT-AG 0 1.000000099473604e-05 394 rna-XM_035733475.1 32241344 4 220482 220875 Schistosoma haematobium 6185 GAA|GTAATGTAAA...AAATATTTAACA/ATTAGTCTCATA...TCTAG|GAA 0 1 42.116
180024461 GT-AG 0 6.543151809504122e-05 898 rna-XM_035733475.1 32241344 5 221142 222039 Schistosoma haematobium 6185 TCA|GTGAGCTGAA...AACTCCTTATCT/CTATGATTTATT...TTAAG|GTG 2 1 60.512
180024462 GT-AG 0 1.278498327459166e-05 3329 rna-XM_035733475.1 32241344 6 222299 225627 Schistosoma haematobium 6185 AGT|GTAAGTAAAA...TCTACTTTATTT/CTTATATTAATC...CTTAG|TGG 0 1 78.423

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]);