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 = 8933518

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
48130594 GT-AG 0 4.698613142462741e-05 827 rna-XM_027315750.1 8933518 1 34825668 34826494 Coffea eugenioides 49369 TGC|GTTTGTGAGC...GTTTTCTTTCCA/CAATATCTCATC...TACAG|CTT 1 1 1.632
48130595 GT-AG 0 1.000000099473604e-05 286 rna-XM_027315750.1 8933518 2 34826688 34826973 Coffea eugenioides 49369 CTG|GTCATTCCGT...TTGTTCTTACAA/TTTGTTCTTACA...CTTAG|TTA 2 1 5.212
48130596 GT-AG 0 0.0001299068267206 148 rna-XM_027315750.1 8933518 3 34827351 34827498 Coffea eugenioides 49369 AAG|GTATATACCA...GAGTCCATATAT/ACTATTCTCATA...TGCAG|CAC 1 1 12.206
48130597 GT-AG 0 0.0009584017028901 117 rna-XM_027315750.1 8933518 4 34827880 34827996 Coffea eugenioides 49369 CAG|GTATTATTCA...GTTTCTTTTGCA/TTTAAAATAATA...GCCAG|GCA 1 1 19.273
48130598 GT-AG 0 6.826543065818649e-05 115 rna-XM_027315750.1 8933518 5 34828099 34828213 Coffea eugenioides 49369 CAG|GTTGCTCTTT...TTCCTTTTGAGT/TTCCTTTTGAGT...TGCAG|GGA 1 1 21.165
48130599 GC-AG 0 1.000000099473604e-05 94 rna-XM_027315750.1 8933518 6 34829126 34829219 Coffea eugenioides 49369 GAG|GCAAGTATAT...TTTTCTTTACAT/TCTTTTTTCATT...TATAG|CTG 1 1 38.082
48130600 GT-AG 0 1.000000099473604e-05 90 rna-XM_027315750.1 8933518 7 34831846 34831935 Coffea eugenioides 49369 CAG|GTTAAAGAAT...TTTTTTCTAGTT/TACATTCTCACT...AACAG|GTT 2 1 86.793

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]);