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)

8 rows where transcript_id = 12720275

✎ 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
67622464 GT-AG 0 1.000000099473604e-05 427 rna-XM_009897443.1 12720275 1 36801 37227 Dryobates pubescens 118200 AGG|GTCTGGGAAA...TGGCCCCTGCCC/CAGCTGCTGATG...TGCAG|ACA 1 1 6.597
67622465 GT-AG 0 1.000000099473604e-05 259 rna-XM_009897443.1 12720275 2 36351 36609 Dryobates pubescens 118200 GAG|GTATGGAGAC...ATCTCTCTCGCC/CTCCAGCACATC...CCCAG|GCC 0 1 23.177
67622466 GT-AG 0 1.000000099473604e-05 166 rna-XM_009897443.1 12720275 3 36047 36212 Dryobates pubescens 118200 GAG|GTGAGGTGCC...CTGCTCTGAACC/TCTGCTCTGAAC...GGCAG|GCT 0 1 35.156
67622467 GT-AG 0 2.763229136324127e-05 708 rna-XM_009897443.1 12720275 4 35202 35909 Dryobates pubescens 118200 GAG|GTAGGCTGGG...CTGCCCCTGCCT/TCCTGCTGCAGC...GGCAG|CTT 2 1 47.049
67622468 GT-AG 0 1.000000099473604e-05 135 rna-XM_009897443.1 12720275 5 34876 35010 Dryobates pubescens 118200 CAG|GTGAGCGCCG...TTGGCCTGGCTG/GCTGGGTTCAGC...CGCAG|GGC 1 1 63.628
67622469 GT-AG 0 1.000000099473604e-05 103 rna-XM_009897443.1 12720275 6 34669 34771 Dryobates pubescens 118200 ACG|GTGAGCAAGG...GCTGCCTTTCCT/CTGGGGCTCACT...CCCAG|GTG 0 1 72.656
67622470 GC-AG 0 1.000000099473604e-05 341 rna-XM_009897443.1 12720275 7 34213 34553 Dryobates pubescens 118200 AGG|GCAGGAGCCT...GGCCGCTTGCCC/CCCAGTGTGATG...CGCAG|CTG 1 1 82.639
67622471 GT-AG 0 1.000000099473604e-05 7889 rna-XM_009897443.1 12720275 8 26204 34092 Dryobates pubescens 118200 CAG|GTGGGAGCCT...GGCTCCTTCCTG/CCGCCGGTGAGA...TACAG|GAA 1 1 93.056

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]);