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 = 20429265

✎ 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
109622407 GT-AG 0 0.0082527496279806 522 rna-XM_042636866.1 20429265 1 24785747 24786268 Macadamia integrifolia 60698 AAG|GTAACTTATC...ATTTTCATGATT/CAAATTTTCATG...TGAAG|ACA 1 1 17.801
109622408 GT-AG 0 0.0100245682901311 5128 rna-XM_042636866.1 20429265 2 24786449 24791576 Macadamia integrifolia 60698 CAG|GTATTTTTGT...TACATCTAAATC/TACATATTTATA...TGCAG|CTA 1 1 21.48
109622409 GT-AG 0 1.000000099473604e-05 6652 rna-XM_042636866.1 20429265 3 24792749 24799400 Macadamia integrifolia 60698 AAG|GTAATTGTTT...TTTTCCTTGAGC/GCATATTTTATT...GATAG|ACC 0 1 45.432
109622410 GT-AG 0 1.000000099473604e-05 8463 rna-XM_042636866.1 20429265 4 24799873 24808335 Macadamia integrifolia 60698 TGA|GTGGGTGCTG...TCTTTTTTCATT/TCTTTTTTCATT...ATTAG|TTG 1 1 55.079
109622411 GT-AG 0 1.000000099473604e-05 143 rna-XM_042636866.1 20429265 5 24809176 24809318 Macadamia integrifolia 60698 AAG|GTAATGAGCT...TGGTTCTTGTTA/CAAATTTTCATG...TGAAG|ACA 1 1 72.246
109622412 GT-AG 0 0.0002187591498381 1973 rna-XM_042636866.1 20429265 6 24809493 24811465 Macadamia integrifolia 60698 CAG|GTAATCTTCT...TAATTTTAAGCT/ATAATTTTAAGC...TGCAG|GTG 1 1 75.802

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]);