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 = 2121770

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
11620878 GT-AG 0 0.0005708906277055 57 rna-XM_009823005.1 2121770 1 1033789 1033845 Aphanomyces astaci 112090 GCG|GTATGTACAT...CATTTCTAAATC/CCATTTCTAAAT...TATAG|ATG 2 1 26.605
11620879 GT-AG 0 0.0043697851193522 61 rna-XM_009823005.1 2121770 2 1032341 1032401 Aphanomyces astaci 112090 GAG|GTATGTTTCA...ATCGTGTTGACA/ATCGTGTTGACA...GGTAG|AGC 0 1 50.23
11620880 GT-AG 0 1.000000099473604e-05 65 rna-XM_009823005.1 2121770 3 1031715 1031779 Aphanomyces astaci 112090 GAG|GTACATCGCG...GCCATTTTGGTT/GCGTATATGATT...TGTAG|CTG 0 1 59.785
11620881 GT-AG 0 5.9045025537577385e-05 94 rna-XM_009823005.1 2121770 4 1031382 1031475 Aphanomyces astaci 112090 CGT|GTACGTCAAT...TGTACTTCGAAG/TGTCGTGTGACA...GATAG|ATT 2 1 63.856
11620882 GT-AG 0 0.0003859111824745 56 rna-XM_009823005.1 2121770 5 1031162 1031217 Aphanomyces astaci 112090 TAC|GTACGCCCAT...GTTGTTTTCACG/GTTGTTTTCACG...CGTAG|GCG 1 1 66.65
11620883 GT-AG 0 0.008317101467384 75 rna-XM_009823005.1 2121770 6 1030576 1030650 Aphanomyces astaci 112090 GTG|GTATCAATCT...TTGTGCTCATCC/GTTGTGCTCATC...GTTAG|GAT 2 1 75.353
11620884 GT-AG 0 1.000000099473604e-05 69 rna-XM_009823005.1 2121770 7 1030347 1030415 Aphanomyces astaci 112090 ACG|GTGCGTTGCA...ATGTATTTATTT/CATGTATTTATT...TTTAG|CGC 0 1 78.079
11620885 GT-AG 0 1.000000099473604e-05 61 rna-XM_009823005.1 2121770 8 1029408 1029468 Aphanomyces astaci 112090 CCG|GTATGAAACG...GTGTGGTGGACT/GGTGGACTGAAG...AGTAG|ATG 2 1 93.034

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]);