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)
4 rows where transcript_id = 34480568
This data as json, CSV (advanced)
Suggested facets: phase
id ▼ | dinucleotide_pair | is_minor | score | length | transcript_id | ordinal_index | start | end | taxonomy_id | scored_motifs | phase | in_cds | relative_position |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
193751543 | GT-AG | 0 | 0.0249278966858347 | 53 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA449509 34480568 | 1 | 1117180 | 1117232 | Syncephalastrum racemosum 13706 | TTG|GTAACCCCAA...CCCCCTTTAATA/CCCCCTTTAATA...TGTAG|GTA | 2 | 1 | 9.041 |
193751544 | GT-AG | 0 | 1.000000099473604e-05 | 58 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA449509 34480568 | 2 | 1115915 | 1115972 | Syncephalastrum racemosum 13706 | CGG|GTAAGTGTTT...AAGGTCATATCC/ATCCTGGTAACA...TATAG|GTG | 0 | 1 | 47.876 |
193751545 | GT-AG | 0 | 0.0002610821764517 | 54 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA449509 34480568 | 3 | 1115495 | 1115548 | Syncephalastrum racemosum 13706 | AAG|GTAGCGTTTA...ATTTTCGAAGCG/GCAATTCTCACG...TATAG|TCC | 0 | 1 | 59.653 |
193751546 | GT-AG | 0 | 0.0002340275647466 | 50 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA449509 34480568 | 4 | 1115143 | 1115192 | Syncephalastrum racemosum 13706 | GCG|GTACGTTGCA...CGTGCTGTAATT/TTGAGATTAATC...TGTAG|TCA | 2 | 1 | 69.369 |
Advanced export
JSON shape: default, array, newline-delimited, object
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]);