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 = 17265346

✎ 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
92255775 GT-AG 0 1.000000099473604e-05 502 rna-XM_021444262.1 17265346 1 1427857 1428358 Herrania umbratica 108875 GAG|GTACAAGAAC...TTATTCTGAGAA/ATGGTGTTTATT...TTCAG|TTA 0 1 47.786
92255776 GT-AG 0 1.000000099473604e-05 794 rna-XM_021444262.1 17265346 2 1428517 1429310 Herrania umbratica 108875 CAG|GTAGTGCAAA...GATTGTTTATCT/TTATAATTCAAT...ATCAG|GGA 2 1 52.645
92255777 GT-AG 0 1.5252321533956924e-05 904 rna-XM_021444262.1 17265346 3 1430134 1431037 Herrania umbratica 108875 AAG|GTTTGTATAT...CATTGCTTATTG/GCATTGCTTATT...TCCAG|TTA 0 1 77.952
92255778 GT-AG 0 0.0030408788873572 496 rna-XM_021444262.1 17265346 4 1431185 1431680 Herrania umbratica 108875 GAG|GTATGTTCTC...TTTCCCTTCCTT/CATAAGCTTATG...TGTAG|AAA 0 1 82.472
92255779 GT-AG 0 2.579154767713986e-05 108 rna-XM_021444262.1 17265346 5 1431999 1432106 Herrania umbratica 108875 AAG|GTTGGCTTTT...TTTGGTTTGACT/TTTGGTTTGACT...TCCAG|AAC 0 1 92.251
92255780 GT-AG 0 1.2548209802621535e-05 141 rna-XM_021444262.1 17265346 6 1432167 1432307 Herrania umbratica 108875 GAG|GTACTAACTT...AACTTCTTGAAA/GACGCATTAACT...CCTAG|GTT 0 1 94.096

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]);