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 = 4181841

✎ 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
21587816 GT-AG 0 2.0937160980986448e-05 880 rna-XM_010679291.2 4181841 1 14331792 14332671 Beta vulgaris 161934 CAG|GTTTTAATTT...ATCTTTTTATCC/AATTTTTTCATG...CACAG|ACT 0 1 7.51
21587817 GT-AG 0 1.000000099473604e-05 1800 rna-XM_010679291.2 4181841 2 14334610 14336409 Beta vulgaris 161934 GAG|GTGAAATCCG...AATATCTCATCA/AAATATCTCATC...TGTAG|GTT 0 1 71.344
21587818 GT-AG 0 0.0007135778695042 86 rna-XM_010679291.2 4181841 3 14336532 14336617 Beta vulgaris 161934 CAG|GTAAACTTTG...TAACTCGTAATT/AGCTAGTTCATC...TGCAG|TGA 2 1 75.362
21587819 GT-AG 0 1.9046159646555894e-05 91 rna-XM_010679291.2 4181841 4 14336760 14336850 Beta vulgaris 161934 AAT|GTGCAGTTCT...TCAGTTTTATTT/TTCAGTTTTATT...TGCAG|TTC 0 1 80.04
21587820 GT-AG 0 1.000000099473604e-05 313 rna-XM_010679291.2 4181841 5 14337076 14337388 Beta vulgaris 161934 AAG|GTATGAATAA...TTAGCTTTCTCC/ATTATATTTATA...TGCAG|GTC 0 1 87.451
21587821 GT-AG 0 1.000000099473604e-05 2460 rna-XM_010679291.2 4181841 6 14337464 14339923 Beta vulgaris 161934 ATG|GTAAGATTTA...GTACTTTTGATG/CTATATATGACT...TGCAG|GTT 0 1 89.921
21587822 GT-AG 0 1.000000099473604e-05 138 rna-XM_010679291.2 4181841 7 14340026 14340163 Beta vulgaris 161934 AAG|GTAAAGTGTT...GAACTCTTGTAT/TTGTATTTTAAA...CGTAG|GTC 0 1 93.281

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]);