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)

5 rows where transcript_id = 30628681

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
171035717 GA-TC 0 0.1703743083468851 3424 rna-XM_020537372.1 30628681 1 99848 103271 Rhincodon typus 259920 CTG|GACTCCCTCA...CTGAGTTTAATA/CTGAGTTTAATA...TTGTC|TGT 2 1 0.71
171035718 GT-AG 0 1.000000099473604e-05 6500 rna-XM_020537372.1 30628681 2 93041 99540 Rhincodon typus 259920 ATG|GTAGGAAATA...GGCCACTTATCC/CAAATTCTAATG...CTTAG|TTC 0 1 13.534
171035719 GT-AG 0 1.000000099473604e-05 451 rna-XM_020537372.1 30628681 3 91786 92236 Rhincodon typus 259920 GAG|GTACGAAGTT...CTTTTCTTGTCC/TATCATCTCACC...TCTAG|CTG 0 1 47.118
171035720 GT-AG 0 1.000000099473604e-05 1548 rna-XM_020537372.1 30628681 4 90010 91557 Rhincodon typus 259920 GAG|GTAAGTTCAT...CCTCTTTTAAAG/TTAAAGGTCACT...CCAAG|GTT 0 1 56.642
171035721 GT-AG 0 0.0006979631583875 2480 rna-XM_020537372.1 30628681 5 87406 89885 Rhincodon typus 259920 CAG|GTATTTATCA...TAAGTATTGATC/TAAGTATTGATC...TGTAG|ACT 1 1 61.821

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]);