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 = 30001202

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: dinucleotide_pair, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
168077913 GT-AG 0 1.2954958796480234e-05 520 rna-XM_009376245.2 30001202 2 212520 213039 Pyrus x bretschneideri 225117 CAG|GTTCCACCAC...TAAATTTTAAAT/TAAATTTTAAAT...TGCAG|ATA 0 1 26.473
168077914 GT-AG 0 1.000000099473604e-05 740 rna-XM_009376245.2 30001202 3 211682 212421 Pyrus x bretschneideri 225117 TAG|GTAAAGACTT...GTTGTTGTAACT/GTTGTTGTAACT...CACAG|AGC 2 1 30.658
168077915 GT-AG 0 0.0004167304289974 121 rna-XM_009376245.2 30001202 4 210991 211111 Pyrus x bretschneideri 225117 AAG|GTACTTTCAA...GATCCTTTATTC/ATTGATTTAACT...CCTAG|TGC 2 1 54.996
168077916 GT-AG 0 0.0104129372208526 106 rna-XM_009376245.2 30001202 5 210629 210734 Pyrus x bretschneideri 225117 CAA|GTAATCTTTC...TCATTCTAAACT/ATTTGTGTGACT...TGTAG|CAA 0 1 65.927
168077917 GT-AG 0 0.0011002949141758 100 rna-XM_009376245.2 30001202 6 210346 210445 Pyrus x bretschneideri 225117 CAG|GTATTTGATT...TTCACCTTATTA/TGGTTATTCACC...CCCAG|CTG 0 1 73.74
168079616 CA-AA 0 0.0003786777130246 32 rna-XM_009376245.2 30001202 1 213617 213648 Pyrus x bretschneideri 225117 GTC|CACTATACTT...TCTACTTCAGAA/ATCTACTTCAGA...CACAA|CTA   0 3.928

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]);