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 = 7607403

✎ 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
39980263 GT-AG 0 2.892063717800675e-05 8337 rna-gnl|WGS:VWPQ|CEUAER_R10079_mrna 7607403 1 498244 506580 Ceuthmochares aereus 1961834 ACG|GTACGTGAAC...AATTTCTTATTC/TAATTTCTTATT...TCCAG|ATT 0 1 34.574
39980264 GT-AG 0 3.241515700772334e-05 2308 rna-gnl|WGS:VWPQ|CEUAER_R10079_mrna 7607403 2 506835 509142 Ceuthmochares aereus 1961834 CAG|GTAAATTTAG...AGCTCCTTGTCT/CCTTGTCTGAAA...TCTAG|TCT 2 1 57.092
39980265 GT-AG 0 0.0001564883821211 404 rna-gnl|WGS:VWPQ|CEUAER_R10079_mrna 7607403 3 509320 509723 Ceuthmochares aereus 1961834 AAG|GTATGTGGTA...CACTCCTAAATA/AAATAACTCATA...CACAG|CTT 2 1 72.784
39980266 GT-AG 0 1.000000099473604e-05 4642 rna-gnl|WGS:VWPQ|CEUAER_R10079_mrna 7607403 4 509848 514489 Ceuthmochares aereus 1961834 GAG|GTAAGATAGC...TAATTTTTGCTG/ATGTAGCTGAAT...TACAG|AAT 0 1 83.777
39980267 GT-AG 0 1.000000099473604e-05 633 rna-gnl|WGS:VWPQ|CEUAER_R10079_mrna 7607403 5 514616 515248 Ceuthmochares aereus 1961834 GAG|GTAAGGAAAT...TATTTCTTATTT/TTATTTCTTATT...TAAAG|GGT 0 1 94.947

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]);