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)

6 rows where transcript_id = 1565106

✎ 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
8696201 GT-AG 0 1.000000099473604e-05 393 rna-XM_020240512.1 1565106 2 23452819 23453211 Ananas comosus 4615 CAG|GTTAGAAACC...AGAATTTTAACA/AGAATTTTAACA...TTCAG|AGG 1 1 39.269
8696202 GT-AG 0 1.000000099473604e-05 635 rna-XM_020240512.1 1565106 3 23451995 23452629 Ananas comosus 4615 GAG|GTAAATAACC...CTAATCTAAATT/TCTAAATTCACG...TTCAG|GAT 1 1 43.756
8696203 GT-AG 0 1.000000099473604e-05 163 rna-XM_020240512.1 1565106 4 23451736 23451898 Ananas comosus 4615 CAG|GTTTGAATTT...TTTATTTTATTT/TTTTATTTTATT...CACAG|TTG 1 1 46.035
8696204 GT-AG 0 0.0001433847520483 753 rna-XM_020240512.1 1565106 5 23450805 23451557 Ananas comosus 4615 TAG|GTAATTTCTA...TTTTTTTTAAAA/TTTTTTTTTAAA...CATAG|CAA 2 1 50.261
8696205 GT-AG 0 2.47468718362561e-05 4552 rna-XM_020240512.1 1565106 6 23446120 23450671 Ananas comosus 4615 CAG|GTAACACAGA...ATTCCCTTGTCT/CTGTAGCTGATA...TACAG|ATG 0 1 53.419
8696206 GT-AG 0 0.0023856692376101 137 rna-XM_020240512.1 1565106 7 23444216 23444352 Ananas comosus 4615 TGG|GTCTGCTCTC...GAATGCTTAATA/TTGATGTTTATT...TTCAG|GTT 0 1 95.37

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]);