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 = 19586908

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: dinucleotide_pair, score

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
104998825 GT-AA 0 1.000000099473604e-05 14655 rna-XM_022385313.1 19586908 1 5111146 5125800 Limulus polyphemus 6850 TAG|GTAAAATATA...AAAACATTAACA/AAAACATTAACA...AAAAA|AAA 1 1 22.222
104998826 GT-AG 0 2.3253755233066165e-05 4930 rna-XM_022385313.1 19586908 2 5106150 5111079 Limulus polyphemus 6850 GTG|GTAAGCAAGT...AAGTTCTTATTA/GAAGTTCTTATT...TTTAG|CTT 1 1 27.575
104998827 GT-AG 0 1.000000099473604e-05 2399 rna-XM_022385313.1 19586908 3 5103634 5106032 Limulus polyphemus 6850 CAG|GTGAGATTCA...AATATTTTACCA/TTAATATTAATT...ATCAG|GAT 1 1 37.064
104998828 GT-AG 0 1.000000099473604e-05 259 rna-XM_022385313.1 19586908 4 5103237 5103495 Limulus polyphemus 6850 AAG|GTAAAAATAT...ATTTATTTAACA/AATTTATTTATT...TGTAG|GTG 1 1 48.256
104998829 GT-AG 0 1.000000099473604e-05 4230 rna-XM_022385313.1 19586908 5 5098752 5102981 Limulus polyphemus 6850 AAG|GTAAGTGTGT...AGATTATTGAAC/TGGTTTTTCAAA...TTCAG|GAA 1 1 68.938
104998830 GT-AG 0 1.099753312792286e-05 740 rna-XM_022385313.1 19586908 6 5097796 5098535 Limulus polyphemus 6850 CAG|GTTTGTTAAC...CATGTCTGAATT/TTTTTTCTGAAG...TTCAG|GTA 1 1 86.456

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]);