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 = 12917224

✎ 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
68847163 GT-AG 0 1.000000099473604e-05 1598 rna-XM_009635470.2 12917224 1 1284730 1286327 Egretta garzetta 188379 CAG|GTAAGGTAAT...TTATTTTTGAAT/TTTTATTTCATT...AACAG|TGT 0 1 12.392
68847164 GT-AG 0 1.000000099473604e-05 494 rna-XM_009635470.2 12917224 2 1284136 1284629 Egretta garzetta 188379 AAG|GTTGAGTAGC...ATTTTTTTTTCT/AAAGCATTCACG...TACAG|TTG 1 1 21.998
68847165 GT-AG 0 5.013656210317818e-05 711 rna-XM_009635470.2 12917224 3 1283313 1284023 Egretta garzetta 188379 TGT|GTAAGTACAA...GACCTCTTATTT/TGACCTCTTATT...TTCAG|TAT 2 1 32.757
68847166 GT-AG 0 7.798620795825399e-05 1636 rna-XM_009635470.2 12917224 4 1281535 1283170 Egretta garzetta 188379 CTG|GTAAGCTTAT...TATGTCCTAATG/TATGTCCTAATG...TACAG|GCA 0 1 46.398
68847167 GT-AG 0 3.901362144397242e-05 1127 rna-XM_009635470.2 12917224 5 1280299 1281425 Egretta garzetta 188379 CAG|GTATGTGATT...GTTGTTTTGTTT/CTGTTCCAAATC...GCTAG|GTG 1 1 56.868
68847168 GT-AG 0 1.3375987363884033e-05 586 rna-XM_009635470.2 12917224 6 1279524 1280109 Egretta garzetta 188379 TTG|GTAAAATACT...CTCTCTTTAACA/CTCTCTTTAACA...TCCAG|GAT 1 1 75.024
68847169 GT-AG 0 0.0005389621126595 822 rna-XM_009635470.2 12917224 7 1278530 1279351 Egretta garzetta 188379 TGC|GTAAGTATTC...TTAACTTTAATT/ACAATATTAACT...CCTAG|GTG 2 1 91.547

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]);