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)

8 rows where transcript_id = 670720

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
3637086 GT-AG 0 1.000000099473604e-05 61 rna-BJG266_LOCUS90 670720 1 264570 264630 Adineta steineri 433720 TTG|GTAATAAATA...TTCTTTTTATTT/TTTTTATTTATT...TTAAG|GTA 1 1 2.426
3637087 GT-AG 0 1.000000099473604e-05 62 rna-BJG266_LOCUS90 670720 2 264263 264324 Adineta steineri 433720 CAA|GTAAGAATAA...ATTTTTTTATTT/AATTTTTTTATT...TCTAG|GAA 0 1 12.172
3637088 GT-AG 0 1.000000099473604e-05 555 rna-BJG266_LOCUS90 670720 3 262900 263454 Adineta steineri 433720 ATG|GTAAGAAAAT...TTTTCCTTAAAT/ATTTTCCTTAAA...ATTAG|CTA 1 1 44.312
3637089 GT-AG 0 0.0007703986408728 51 rna-BJG266_LOCUS90 670720 4 262692 262742 Adineta steineri 433720 TCG|GTTTGTTGAT...TAATTTTTGATT/TAATTTTTGATT...TATAG|ATA 2 1 50.557
3637090 GT-AG 0 1.000000099473604e-05 54 rna-BJG266_LOCUS90 670720 5 262528 262581 Adineta steineri 433720 CAA|GTAAAATATT...ATTTTATTATAT/TATTTTATTATA...TATAG|ATC 1 1 54.932
3637091 GT-AG 0 2.114317338599262e-05 60 rna-BJG266_LOCUS90 670720 6 262100 262159 Adineta steineri 433720 CAA|GTTCGTATAT...GATATTTTAATA/TGTAATTTTATT...TTAAG|ATT 0 1 69.57
3637092 GT-AG 0 0.0212081784277763 60 rna-BJG266_LOCUS90 670720 7 261792 261851 Adineta steineri 433720 TGA|GTATGTATTT...TTTTGTTTATTA/ATTTTGTTTATT...TCTAG|TCA 2 1 79.435
3637093 GT-AG 0 0.0010507133858735 53 rna-BJG266_LOCUS90 670720 8 261516 261568 Adineta steineri 433720 ATA|GTAAGTTTGT...TTTTTTTTATTT/TTTTTTTTTATT...AATAG|AAT 0 1 88.305

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]);