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 = 7738650

✎ 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
40790547 GT-AG 0 1.000000099473604e-05 652 rna-XM_009881332.1 7738650 1 34227 34878 Charadrius vociferus 50402 TCC|GTTGGTTCAG...ATCTCTATAGAG/ATTTTGCGCATC...TCTAG|CTG 0 1 12.544
40790548 GT-AG 0 0.0030264181261737 452 rna-XM_009881332.1 7738650 2 33711 34162 Charadrius vociferus 50402 GCG|GTATGTACTC...TCAGTTTTAATG/TCAGTTTTAATG...TTAAG|GAA 1 1 19.977
40790549 GT-AG 0 0.0001032190091216 1176 rna-XM_009881332.1 7738650 3 32430 33605 Charadrius vociferus 50402 AGA|GTAAGTTGAT...TGGTTTTTATCT/GTGGTTTTTATC...TGTAG|CTG 1 1 32.172
40790550 GT-AG 0 1.000000099473604e-05 990 rna-XM_009881332.1 7738650 4 31309 32298 Charadrius vociferus 50402 CAG|GTAAGGAAAA...ATTGCCTTCTTT/GTCTGTTTGAGA...TGTAG|GCA 0 1 47.387
40790551 GT-AG 0 0.000328740655789 1033 rna-XM_009881332.1 7738650 5 30132 31164 Charadrius vociferus 50402 AAA|GTATGTAAAA...GCAGCCTTGTTT/TCTTCACTCATA...TTCAG|CAA 0 1 64.111
40790552 GT-AG 0 0.000674852520539 1802 rna-XM_009881332.1 7738650 6 28197 29998 Charadrius vociferus 50402 GCG|GTATGACTTA...ATTTTTTTATTT/TATTTTTTTATT...TCTAG|GTA 1 1 79.559
40790553 GT-AG 0 2.2348217608242413e-05 1578 rna-XM_009881332.1 7738650 7 26556 28133 Charadrius vociferus 50402 AAG|GTAAATTTTT...CCTACGTTGAAG/AAATAAATTATT...TGCAG|CTG 1 1 86.876

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]);