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 = 10378445

✎ 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
57022872 GT-AG 0 1.000000099473604e-05 368 rna-XM_025131700.1 10378445 1 20224183 20224550 Cynara cardunculus 4265 AAG|GTGCTAAAAG...GCATCCTTCTCG/CCAATGTTTATG...TTCAG|TGG 1 1 43.092
57022873 GT-AG 0 0.0004118588291442 954 rna-XM_025131700.1 10378445 2 20224864 20225817 Cynara cardunculus 4265 AAG|GTATGTTAGA...CTGTTCTAATCG/TCTGTTCTAATC...CACAG|GTT 2 1 51.972
57022874 GT-AG 0 1.000000099473604e-05 1145 rna-XM_025131700.1 10378445 3 20226500 20227644 Cynara cardunculus 4265 CAG|GTGAAAACTC...TGTGTTTTATTT/TTGTGTTTTATT...ATCAG|CTA 0 1 71.319
57022875 GT-AG 0 0.0016325072517195 131 rna-XM_025131700.1 10378445 4 20227769 20227899 Cynara cardunculus 4265 ATG|GTATGCACCA...AGAATTTTGAAA/AGAATTTTGAAA...TACAG|GTG 1 1 74.837
57022876 GT-AG 0 0.0006361692968491 671 rna-XM_025131700.1 10378445 5 20228120 20228790 Cynara cardunculus 4265 CTG|GTAAGCTTTT...TTTTTCTAATCT/CTTTTTCTAATC...TTCAG|GTA 2 1 81.078
57022877 GT-AG 0 0.0004267719316028 595 rna-XM_025131700.1 10378445 6 20229250 20229844 Cynara cardunculus 4265 CTG|GTATGCATAA...ACCGTTTCGATG/CTCCAATTCACC...TGCAG|GGC 2 1 94.099

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]);