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 = 37764292

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
208415598 GT-AG 0 1.000000099473604e-05 1357 rna-XM_044423448.1 37764292 4 42388581 42389937 Varanus komodoensis 61221 CAG|GTAATTAACT...TTCTTTTTACAT/CTTCTTTTTACA...TGCAG|ATG 0 1 72.967
208415599 GT-AG 0 0.0002192874127318 4014 rna-XM_044423448.1 37764292 5 42390093 42394106 Varanus komodoensis 61221 AGG|GTAAGCATAT...ATTATCTTAATA/ATTATCTTAATA...AACAG|GTA 2 1 74.915
208415600 GT-AG 0 2.427540879190061e-05 2937 rna-XM_044423448.1 37764292 6 42394283 42397219 Varanus komodoensis 61221 AAG|GTACTTAGTC...TTCTCATTAGTG/TGTCTTCTCATT...CACAG|GAA 1 1 77.127
208415601 GT-AG 0 0.0003091352330379 917 rna-XM_044423448.1 37764292 7 42397322 42398238 Varanus komodoensis 61221 CAG|GTATGTCACC...TATGCTTTATTG/GCTTTATTGACT...TCCAG|AAA 1 1 78.409
208415602 GT-AG 0 3.128680749676588e-05 2684 rna-XM_044423448.1 37764292 8 42399141 42401824 Varanus komodoensis 61221 TTG|GTAAGTTGGA...CTTGCCTTACTG/TTGTTGCTAATT...TGCAG|AGT 0 1 89.745
208429114 GT-AG 0 1.0476261989642689e-05 102521 rna-XM_044423448.1 37764292 1 42254584 42357104 Varanus komodoensis 61221 CAG|GTGAGCTTCT...CTTTTCTTAATT/CTTTTCTTAATT...AATAG|GTG   0 6.648
208429115 GT-AG 0 1.000000099473604e-05 25053 rna-XM_044423448.1 37764292 2 42357204 42382256 Varanus komodoensis 61221 GAG|GTAAGAAACT...GTCCCTTTAGTT/TGTTTTCTAATT...TCCAG|GAA   0 7.892
208429116 GT-AG 0 0.0022033263004547 752 rna-XM_044423448.1 37764292 3 42382302 42383053 Varanus komodoensis 61221 CAG|GTAACTTTAA...TCTCTTTTAAGT/GTTGTATTGATC...TTCAG|GCA   0 8.458

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]);