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 = 31249591

✎ 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
174208987 GT-AG 0 7.722689352299155e-05 210 rna-FME351_LOCUS116 31249591 1 144879 145088 Rotaria socialis 392032 CAG|GTTTATTTGA...AATCTCTTCCTT/TAATTGTTCATT...AATAG|CGC 0 1 11.631
174208988 GT-AG 0 1.000000099473604e-05 71 rna-FME351_LOCUS116 31249591 2 145208 145278 Rotaria socialis 392032 GAG|GTTGATTCTA...TTTTGTTTGATC/TTTTGTTTGATC...ATTAG|TAA 2 1 17.623
174208989 GT-AG 0 1.000000099473604e-05 69 rna-FME351_LOCUS116 31249591 3 145485 145553 Rotaria socialis 392032 GAG|GTTCGATCAA...ATTCTATTAAAT/CTAAAATTTATT...TTTAG|GTT 1 1 27.996
174208990 GT-AG 0 0.0001948973964154 579 rna-FME351_LOCUS116 31249591 4 146006 146584 Rotaria socialis 392032 GAC|GTAAGTTAAT...TTCTCTTTGAAA/TTCTCTTTGAAA...TTTAG|ATT 0 1 50.755
174208991 GT-AG 0 0.0019254698878887 54 rna-FME351_LOCUS116 31249591 5 146643 146696 Rotaria socialis 392032 CAA|GTATGTCTCA...GAGTTCTGATTC/AGAGTTCTGATT...TATAG|TTG 1 1 53.676
174208992 GT-AG 0 1.000000099473604e-05 66 rna-FME351_LOCUS116 31249591 6 146886 146951 Rotaria socialis 392032 TAG|GTAAGAAGAA...ATGTTTTTAAAA/ATGGGTTTTATT...AAAAG|GTG 1 1 63.192
174208993 GT-AG 0 1.000000099473604e-05 765 rna-FME351_LOCUS116 31249591 7 147117 147881 Rotaria socialis 392032 AAG|GTGATTATTA...AATTATTTGATT/CATTTACTAATT...CTCAG|GTG 1 1 71.501
174208994 GT-AG 0 0.0001164725545338 56 rna-FME351_LOCUS116 31249591 8 148014 148069 Rotaria socialis 392032 CTG|GTAAGCATTC...TTTTTTTTGAAA/TTTTTTTTGAAA...TTGAG|GAA 1 1 78.147

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]);