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 = 2569284

✎ 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
13842688 GT-AG 0 1.000000099473604e-05 7432 rna-XM_026056460.1 2569284 3 10767916 10775347 Apteryx rowi 308060 CTG|GTAAGGAGTA...CTGATTTTGATG/CTGATTTTGATG...TACAG|GAC 0 1 16.42
13842689 GT-AG 0 2.4016109673293334e-05 17156 rna-XM_026056460.1 2569284 4 10776318 10793473 Apteryx rowi 308060 CAA|GTAAGTTGTT...GGGTCTCTGACG/GGGTCTCTGACG...CGCAG|GTG 1 1 56.337
13842690 GT-AG 0 6.036126294067808e-05 6011 rna-XM_026056460.1 2569284 5 10793756 10799766 Apteryx rowi 308060 CTC|GTAAGTTTGT...GTTTCCTGTGTT/TGCTAGTTCACG...CCCAG|GGC 1 1 67.942
13842691 GT-AG 0 1.000000099473604e-05 1170 rna-XM_026056460.1 2569284 6 10799940 10801109 Apteryx rowi 308060 CAG|GTAAGATCGT...CTTGCCTTAACT/ACGCTTTTCATT...TGCAG|GCC 0 1 75.062
13842692 GT-AG 0 1.000000099473604e-05 90 rna-XM_026056460.1 2569284 7 10801162 10801251 Apteryx rowi 308060 CAG|GTAAGTAGAG...AAGACATTGATT/AAGACATTGATT...TTTAG|ATT 1 1 77.202

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]);