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)

7 rows where transcript_id = 4181839

✎ 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
21587807 GT-AG 0 1.000000099473604e-05 2256 rna-XM_010689815.2 4181839 2 33641233 33643488 Beta vulgaris 161934 CAG|GTTTAGATTT...TCCTTCTTATTT/TTCCTTCTTATT...TGCAG|GAG 0 1 12.77
21587808 GT-AG 0 0.008620363547515 104 rna-XM_010689815.2 4181839 3 33643544 33643647 Beta vulgaris 161934 AGG|GTATATATCT...TCTTCATTGACT/ACTTTACTTACT...GCCAG|GTG 1 1 14.447
21587809 GT-AG 0 1.2197697008136622e-05 549 rna-XM_010689815.2 4181839 4 33645585 33646133 Beta vulgaris 161934 CAG|GTTTTTCTAT...GTTGTATTGATC/GTTGTATTGATC...CTTAG|GTT 0 1 73.484
21587810 GT-AG 0 0.9841667843700144 5673 rna-XM_010689815.2 4181839 5 33646293 33651965 Beta vulgaris 161934 GAG|GTATTCTTGT...TAAACTTTAACT/TAAACTTTAACT...GTCAG|GTG 0 1 78.33
21587811 GT-AG 0 1.000000099473604e-05 397 rna-XM_010689815.2 4181839 6 33652138 33652534 Beta vulgaris 161934 CCG|GTGAGCCCTA...TATCTTTTTATT/TATCTTTTTATT...TCCAG|GAA 1 1 83.572
21587812 GT-AG 0 1.864100220836475e-05 771 rna-XM_010689815.2 4181839 7 33652834 33653604 Beta vulgaris 161934 CAG|GTATAAATAT...CAAGTCTTTTCA/AGTCTTTTCAAA...GTCAG|GTA 0 1 92.685
21593203 GT-AG 0 0.0006713159698436 84 rna-XM_010689815.2 4181839 1 33640823 33640906 Beta vulgaris 161934 CTG|GTAAATTTTT...TGTCTCTTACTT/TTGTCTCTTACT...TTCAG|CGT   0 7.376

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]);