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 = 35515690

✎ 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
199620047 GT-AG 0 1.000000099473604e-05 1374 rna-XM_010211168.1 35515690 1 4650 6023 Tinamus guttatus 94827 AAG|GTAAGTGGTT...ATTTTTGTATCG/TGGAGATTTATT...CCCAG|ATT 1 1 2.568
199620048 GT-AG 0 1.000000099473604e-05 616 rna-XM_010211168.1 35515690 2 6059 6674 Tinamus guttatus 94827 AAG|GTTAATGCCC...GTTTTGTTATCA/TTTGTTATCATT...TGTAG|GCT 0 1 3.188
199620049 GT-AG 0 1.000000099473604e-05 916 rna-XM_010211168.1 35515690 3 6793 7708 Tinamus guttatus 94827 CAG|GTAAACAGCT...CACATTTTAGAT/ATCAGTTTCACA...CTCAG|GGT 1 1 5.278
199620050 GT-AG 0 1.000000099473604e-05 4249 rna-XM_010211168.1 35515690 4 7829 12077 Tinamus guttatus 94827 TAG|GTGAGTAAAA...TCTTCCTTTGTT/TTTTTGTTTATT...TCCAG|GAC 1 1 7.403
199620051 GT-AG 0 1.000000099473604e-05 22665 rna-XM_010211168.1 35515690 5 12242 34906 Tinamus guttatus 94827 CAG|GTAAGTAAAC...CTATTTCTGACT/CTATTTCTGACT...TCTAG|ATG 0 1 10.308
199620052 GT-AG 0 0.0004681334616981 456 rna-XM_010211168.1 35515690 6 35004 35459 Tinamus guttatus 94827 AAG|GTAACTCCAC...TAAACCTTGACA/CTTTTATTCAAT...TTTAG|GAG 1 1 12.026
199620053 GT-AG 0 1.740885884315348e-05 4311 rna-XM_010211168.1 35515690 7 35566 39876 Tinamus guttatus 94827 AAA|GTAAGTACTG...AGCATTTTAATT/AGCATTTTAATT...TTTAG|ATC 2 1 13.904
199620054 GT-AG 0 1.000000099473604e-05 2891 rna-XM_010211168.1 35515690 8 41831 44721 Tinamus guttatus 94827 AAG|GTAAAGTAGT...TTTTTTTTTTCC/TATGATCTCATA...CGTAG|ATT 0 1 48.512

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]);