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 = 2107326

✎ 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
11507150 GT-AG 0 1.000000099473604e-05 25836 rna-XM_009878041.1 2107326 1 6869 32704 Apaloderma vittatum 57397 AAG|GTAAGGGGGG...ATATTTTTATTT/TATATTTTTATT...TTTAG|GTA 2 1 11.583
11507151 GT-AG 0 5.301609986187568e-05 2407 rna-XM_009878041.1 2107326 2 32798 35204 Apaloderma vittatum 57397 GAT|GTAAGTATGA...TTCTTTTTATCT/TGATTTTTTATT...TTTAG|GGT 2 1 19.805
11507152 GT-AG 0 1.000000099473604e-05 2946 rna-XM_009878041.1 2107326 3 35292 38237 Apaloderma vittatum 57397 CAA|GTAAGAGTGC...ATTTCCTTGATC/CTTGATCTTACT...TACAG|GTC 2 1 27.498
11507153 GT-AG 0 4.6626714558296977e-05 2230 rna-XM_009878041.1 2107326 4 38383 40612 Apaloderma vittatum 57397 AAG|GTGCCTCATG...GCTTCCTTGCTG/GGATATTTAACT...TTCAG|GAT 0 1 40.318
11507154 GT-AG 0 8.570235725156464e-05 3364 rna-XM_009878041.1 2107326 5 40726 44089 Apaloderma vittatum 57397 TCG|GTAATCACCA...AATTGTTTAACT/TTATAACTAATT...TGTAG|ATG 2 1 50.309
11507155 GT-AG 0 1.000000099473604e-05 985 rna-XM_009878041.1 2107326 6 44183 45167 Apaloderma vittatum 57397 GAG|GTCTGAGTTT...CTGGTCTGACTG/GCTGGTCTGACT...TTTAG|GTT 2 1 58.532

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]);