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 = 2107369

✎ 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
11507727 GT-AG 0 1.000000099473604e-05 545 rna-XM_009869051.1 2107369 1 675 1219 Apaloderma vittatum 57397 GAG|GTGAGTAAGG...TGAATTTTATTT/ATTTTATTTACT...ACTAG|CGC 2 1 7.682
11507728 GT-AG 0 1.19400801735948e-05 204 rna-XM_009869051.1 2107369 2 1272 1475 Apaloderma vittatum 57397 GTG|GTAAGTTCTA...TATTTCTTGTTT/GAGTTGCTCATT...TACAG|GAT 0 1 14.341
11507729 GT-AG 0 1.000000099473604e-05 187 rna-XM_009869051.1 2107369 3 1547 1733 Apaloderma vittatum 57397 CAG|GTGGGTGCAT...AAAGCTGTAAAT/AATGTTGTCATC...TTTAG|GAT 2 1 23.431
11507730 GT-AG 0 1.000000099473604e-05 432 rna-XM_009869051.1 2107369 4 1812 2243 Apaloderma vittatum 57397 CAT|GTAAGTTGGG...GTGTCCCTCGTG/ATGGAATTAAAT...TTTAG|GAT 2 1 33.419
11507731 GT-AG 0 3.667643777139604e-05 449 rna-XM_009869051.1 2107369 5 2436 2884 Apaloderma vittatum 57397 GGA|GTACGTGGAG...TTTTTCTTTGTT/TCCTTTCTGAAT...TGTAG|TGC 2 1 58.003
11507732 GT-AG 0 0.000783808392727 756 rna-XM_009869051.1 2107369 6 3022 3777 Apaloderma vittatum 57397 GAT|GTAAGTCTCC...TATTCCTTATCT/ATATTCCTTATC...TCCAG|TTT 1 1 75.544
11507733 GT-AG 0 0.0002531624867672 415 rna-XM_009869051.1 2107369 7 3877 4291 Apaloderma vittatum 57397 AGC|GTAAGTTCCT...ATTTCCTTCTCT/AGAAATATGATA...TGAAG|GGT 1 1 88.22

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]);