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 = 34480551
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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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
193751400 | GT-AG | 0 | 0.0007731508508233 | 124 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA509868 34480551 | 1 | 1537631 | 1537754 | Syncephalastrum racemosum 13706 | ATG|GTACACACCT...TCTTCCTTCTCT/TTGTTTTTCATT...ATCAG|GAT | 0 | 1 | 4.392 |
193751401 | GT-AG | 0 | 0.0024402963135926 | 65 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA509868 34480551 | 2 | 1538139 | 1538203 | Syncephalastrum racemosum 13706 | AAG|GTACCGTCCT...TATTCATTGAAA/TAGATATTCATT...AATAG|TAC | 0 | 1 | 16.102 |
193751402 | GT-AG | 0 | 1.000000099473604e-05 | 59 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA509868 34480551 | 3 | 1538265 | 1538323 | Syncephalastrum racemosum 13706 | ATG|GTAATAGTTT...TCACCCATTATG/ACGATATTCACC...TAAAG|AGG | 1 | 1 | 17.963 |
193751403 | GT-AG | 0 | 1.000000099473604e-05 | 64 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA509868 34480551 | 4 | 1538420 | 1538483 | Syncephalastrum racemosum 13706 | AAG|GTAAGATTAT...GAACTCATATTT/CAGGAACTCATA...TTTAG|AGT | 1 | 1 | 20.891 |
193751404 | GT-AG | 0 | 1.000000099473604e-05 | 64 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA509868 34480551 | 5 | 1538625 | 1538688 | Syncephalastrum racemosum 13706 | ACC|GTGAATATGA...GGATGCTTATAA/AGGATGCTTATA...CTCAG|ATT | 1 | 1 | 25.191 |
193751405 | GT-AG | 0 | 0.0008201907787731 | 61 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA509868 34480551 | 6 | 1538874 | 1538934 | Syncephalastrum racemosum 13706 | CTG|GTATGCACTA...TATAACTTACAC/ATATAACTTACA...GCCAG|GAA | 0 | 1 | 30.833 |
193751406 | GT-AG | 0 | 1.000000099473604e-05 | 47 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA509868 34480551 | 7 | 1539341 | 1539387 | Syncephalastrum racemosum 13706 | CAG|GTAAAGAAAA...CATCCTATGAGA/GAGAAACTGACC...TGTAG|ATA | 1 | 1 | 43.214 |
193751407 | GT-AG | 0 | 2.745595686346684e-05 | 68 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA509868 34480551 | 8 | 1540276 | 1540343 | Syncephalastrum racemosum 13706 | TGG|GTAAGCTACA...GTGCTCATACAT/GGAGTGCTCATA...TGAAG|ACA | 1 | 1 | 70.296 |
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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]);