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)

7 rows where transcript_id = 12917226

✎ 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
68847176 GT-AG 0 1.5563387025477774e-05 33643 rna-XM_035889234.1 12917226 1 438877 472519 Egretta garzetta 188379 AGA|GTAAGTGAGC...CTTATCTTGATA/CTTATCTTGATA...CACAG|ATC 0 1 10.915
68847177 GT-AG 0 0.0102877645207935 13775 rna-XM_035889234.1 12917226 2 472672 486446 Egretta garzetta 188379 GAA|GTATGTTGAT...TTTTTCTTTTTT/AGATTGGTAATT...TCCAG|GTC 2 1 28.756
68847178 GT-AG 0 0.0001215416945719 11966 rna-XM_035889234.1 12917226 3 486523 498488 Egretta garzetta 188379 AAG|GTATGTAACG...TTGGTTTTGATG/TTGGTTTTGATG...TATAG|GTC 0 1 37.676
68847179 GT-AG 0 1.000000099473604e-05 3418 rna-XM_035889234.1 12917226 4 498512 501929 Egretta garzetta 188379 CAA|GTTAGTATCA...TTCTCCTTTCTT/TCGAACCTCACC...CCCAG|CAC 2 1 40.376
68847180 GT-AG 0 1.000000099473604e-05 5859 rna-XM_035889234.1 12917226 5 502134 507992 Egretta garzetta 188379 TAG|GTAAGGTTAT...AACGTTTTGCTT/TGCTTTCTGAAT...TGCAG|TAC 2 1 64.319
68847181 GT-AG 0 3.073893941688369e-05 934 rna-XM_035889234.1 12917226 6 508163 509096 Egretta garzetta 188379 ACA|GTAAGTCAAA...CCTTTTTTAACT/CCTTTTTTAACT...TGCAG|TGC 1 1 84.272
68847182 GT-AG 0 1.000000099473604e-05 3865 rna-XM_035889234.1 12917226 7 509134 512998 Egretta garzetta 188379 AAG|GTAGGCCACT...CTGTCTTTCTCT/TCTTTCTCCACG...CACAG|GGA 2 1 88.615

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]);