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 = 34480543
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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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
193751356 | GT-AG | 0 | 1.000000099473604e-05 | 56 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA23342 34480543 | 1 | 1693647 | 1693702 | Syncephalastrum racemosum 13706 | GAG|GTGAGACGCT...GTGGCCCAAACG/TCAGGATTAACG...GCAAG|TGG | 2 | 1 | 8.904 |
193751357 | GT-AG | 0 | 0.0004737084537246 | 106 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA23342 34480543 | 2 | 1692936 | 1693041 | Syncephalastrum racemosum 13706 | CTG|GTACGTCTTG...TTTTTTTTATTT/TTTTTTTTTATT...GTTAG|CAT | 1 | 1 | 26.395 |
193751358 | GT-AG | 0 | 3.4207819088446205e-05 | 76 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA23342 34480543 | 3 | 1692682 | 1692757 | Syncephalastrum racemosum 13706 | GAA|GTAGGTCCAC...TCATCTTTATTT/AATGTTTTCATC...ATTAG|AAA | 2 | 1 | 31.541 |
193751359 | GT-AG | 0 | 3.079288515353723e-05 | 49 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA23342 34480543 | 4 | 1691698 | 1691746 | Syncephalastrum racemosum 13706 | AAG|GTACACAATA...TTCAAGTTAACA/ATGAAATTGAAT...TTCAG|GTC | 1 | 1 | 58.572 |
193751360 | GT-AG | 0 | 1.000000099473604e-05 | 55 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA23342 34480543 | 5 | 1691383 | 1691437 | Syncephalastrum racemosum 13706 | ACT|GTAAGTGAAA...TACTTATTATTT/CACATACTTATT...TATAG|TTG | 0 | 1 | 66.088 |
193751361 | GT-AG | 0 | 1.000000099473604e-05 | 50 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA23342 34480543 | 6 | 1690295 | 1690344 | Syncephalastrum racemosum 13706 | AAG|GTAATGACGA...TTTGCCTGAACA/ATGCGCCTAACC...TGTAG|ATG | 0 | 1 | 96.097 |
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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]);