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 = 1415847

✎ 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
7708977 GT-AG 0 0.0185106261228513 1157 rna-XM_020001891.1 1415847 1 1700392 1701548 Amphimedon queenslandica 400682 AAG|GTAACTTTAA...AATTTTTTATCT/AAATTTTTTATC...TTCAG|CTG 1 1 12.745
7708978 GT-AG 0 1.000000099473604e-05 51 rna-XM_020001891.1 1415847 2 1700208 1700258 Amphimedon queenslandica 400682 AAG|GTAAATCCTA...ATGTGATTAGTT/TGTCATGTGATT...CTTAG|TAT 2 1 31.373
7708979 GT-AG 0 2.5704815788547148e-05 39 rna-XM_020001891.1 1415847 3 1700034 1700072 Amphimedon queenslandica 400682 AAA|GTAATTTCAA...GTTTGTTTACTA/TGTTTGTTTACT...TTCAG|AAT 2 1 50.28
7708980 GT-AG 0 0.0001112215668901 49 rna-XM_020001891.1 1415847 4 1699876 1699924 Amphimedon queenslandica 400682 CAG|GTTCCATTGT...TTCACTCTAGCT/ATACAATTCACT...TATAG|ACT 0 1 65.546
7708981 GT-AG 0 1.000000099473604e-05 940 rna-XM_020001891.1 1415847 5 1698870 1699809 Amphimedon queenslandica 400682 GAG|GTAAATGAAA...TGTACTTTATTT/AGAAGTTTCACT...TATAG|GAA 0 1 74.79
7708982 GT-AG 0 0.009716991930192 67 rna-XM_020001891.1 1415847 6 1698731 1698797 Amphimedon queenslandica 400682 CCA|GTATGTAATA...AAATTTTTGATA/AAATTTTTGATA...CTTAG|GAT 0 1 84.874
7708983 GT-AG 0 1.6982367265417694e-05 48 rna-XM_020001891.1 1415847 7 1698635 1698682 Amphimedon queenslandica 400682 TTG|GTAATTTGCT...ATATTCCTAATG/ATATTCCTAATG...TGTAG|GAA 0 1 91.597

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]);