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 = 38015527

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: dinucleotide_pair, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
209850276 GT-AG 0 0.0122592393511132 304 rna-XM_028069073.1 38015527 2 3119613 3119916 Vigna unguiculata 3917 TCC|GTAAGCTCTT...TTGATTTTAAAA/TTGATTTTAAAA...TATAG|ATG 2 1 20.441
209850277 AT-AG 0 0.0338268064264521 218 rna-XM_028069073.1 38015527 4 3118265 3118482 Vigna unguiculata 3917 TTT|ATTTATCTTT...TTATTCTTATAT/TTTATTCTTATA...CTTAG|ACT 0 1 51.586
209850278 GT-AG 0 1.000000099473604e-05 99 rna-XM_028069073.1 38015527 5 3117953 3118051 Vigna unguiculata 3917 AAG|GTAAATATTT...ATGCTCTTGTTT/TCTTGTTTCATT...TATAG|AAT 0 1 57.462
209850279 GC-AG 0 0.0184383441949406 143 rna-XM_028069073.1 38015527 6 3117340 3117482 Vigna unguiculata 3917 ATA|GCTTCCTACA...TCTTCCAGAACT/TTGCAAATCACT...TCTAG|TAA 2 1 70.428
209850280 GT-AG 0 0.013268717945347 114 rna-XM_028069073.1 38015527 7 3117171 3117284 Vigna unguiculata 3917 ACT|GTGCCTTAAA...GAAACCTAAATG/CTTCAGTTCAAA...CATAG|CTA 0 1 71.945
209860044 GT-AG 0 0.000107268439776 477 rna-XM_028069073.1 38015527 1 3120500 3120976 Vigna unguiculata 3917 CAG|GTATTGTATG...ATGTTTTTCACT/ATGTTTTTCACT...TGAAG|GGT   0 4.828

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]);