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 = 18666343

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
99589212 GT-AG 0 0.0023429850783431 854 rna-XM_041153442.1 18666343 1 5110611 5111464 Juglans microcarpa x juglans regia 2249226 TTG|GTATGTATGA...CAATTCTTGAAT/TATTTCCTCATT...CATAG|GAC 2 1 9.105
99589213 GT-AG 0 2.7068266538736268e-05 121 rna-XM_041153442.1 18666343 2 5114971 5115091 Juglans microcarpa x juglans regia 2249226 GAG|GTACGTGATC...TTGTTTTTATTT/ATTGTTTTTATT...AAAAG|CTG 1 1 89.316
99589214 GT-AG 0 0.0020046538138252 85 rna-XM_041153442.1 18666343 3 5115190 5115274 Juglans microcarpa x juglans regia 2249226 GCG|GTATGATTCT...GTTTTCTTGTCT/TTGTTATTTAAT...TTCAG|GCA 0 1 91.558
99589215 GT-AG 0 1.7838032535573527e-05 89 rna-XM_041153442.1 18666343 4 5115341 5115429 Juglans microcarpa x juglans regia 2249226 AAT|GTAAAAATCT...TATTTTTTATTG/ATATTTTTTATT...TTCAG|AGA 0 1 93.068
99589216 GT-AG 0 0.0012285227806247 771 rna-XM_041153442.1 18666343 5 5115520 5116290 Juglans microcarpa x juglans regia 2249226 TAT|GTATGTGCTG...CTCTCTTCAGTT/GTATAATTAATT...GGCAG|ATC 0 1 95.127
99589217 GT-AG 0 1.554713031332863e-05 394 rna-XM_041153442.1 18666343 6 5116468 5116861 Juglans microcarpa x juglans regia 2249226 AAG|GTGTGTTCTT...CTTTCCGTACTT/GATCTTCTAATC...TCCAG|GAA 0 1 99.176

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]);