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)

8 rows where transcript_id = 2121812

✎ 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
11621265 GT-AG 0 1.000000099473604e-05 45 rna-XM_009823649.1 2121812 1 2235004 2235048 Aphanomyces astaci 112090 CCG|GTACGCGTCA...ATTCATGTGGCT/ATGTGGCTCACG...TGTAG|CCT 0 1 5.393
11621266 GT-AG 0 1.000000099473604e-05 53 rna-XM_009823649.1 2121812 2 2234491 2234543 Aphanomyces astaci 112090 ATG|GTAAGACTCT...GCATTCTTCATA/GCATTCTTCATA...AACAG|GCA 1 1 18.951
11621267 GT-AG 0 1.000000099473604e-05 46 rna-XM_009823649.1 2121812 3 2234185 2234230 Aphanomyces astaci 112090 CAG|GTAGGCGCCT...TATCTCGTGACA/CAGTTGCTAACG...ACTAG|GAC 0 1 26.614
11621268 GT-AG 0 0.0011339050658252 88 rna-XM_009823649.1 2121812 4 2233740 2233827 Aphanomyces astaci 112090 ACC|GTACGCGCCA...TATATATTAATA/TATATATTAATA...TGTAG|ACG 0 1 37.135
11621269 GT-AG 0 0.1378781150992644 52 rna-XM_009823649.1 2121812 5 2233562 2233613 Aphanomyces astaci 112090 CAA|GTACACATTG...TTTGTCTTGACT/TTTGTCTTGACT...CACAG|GTC 0 1 40.849
11621270 GT-AG 0 1.000000099473604e-05 68 rna-XM_009823649.1 2121812 6 2232888 2232955 Aphanomyces astaci 112090 GCG|GTGCGTGGAT...TTTGTTGTATTG/TGTATTGTCACA...ACTAG|GCG 0 1 58.709
11621271 GT-AG 0 1.7053997458261313e-05 61 rna-XM_009823649.1 2121812 7 2232456 2232516 Aphanomyces astaci 112090 AAG|GTAGGCATTG...CAATTTTTCATT/CAATTTTTCATT...TCTAG|GGT 2 1 69.643
11621272 GT-AG 0 0.0002404373490191 58 rna-XM_009823649.1 2121812 8 2232292 2232349 Aphanomyces astaci 112090 CGG|GTATATCAGC...CATTGTTTGAAG/CATTGTTTGAAG...TGTAG|ACG 0 1 72.767

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]);