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 = 34480517
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
193751113 | GT-AG | 0 | 1.3997255315609165e-05 | 64 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA41462 34480517 | 1 | 2869161 | 2869224 | Syncephalastrum racemosum 13706 | TGG|GTAAACAGGC...GAAACCTAAGCT/CCTAAGCTGATT...TGCAG|GGC | 0 | 1 | 0.716 |
193751114 | GT-AG | 0 | 1.000000099473604e-05 | 69 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA41462 34480517 | 2 | 2868723 | 2868791 | Syncephalastrum racemosum 13706 | CAG|GTACAGGAAC...TGTACCTTGCTA/ACCTTGCTAACC...AATAG|CCC | 0 | 1 | 9.527 |
193751115 | GT-AG | 0 | 1.000000099473604e-05 | 52 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA41462 34480517 | 3 | 2868602 | 2868653 | Syncephalastrum racemosum 13706 | TGG|GTAAAATGAG...CACACCGTAGCT/CCGTAGCTCATT...GATAG|ATT | 0 | 1 | 11.175 |
193751116 | GT-AG | 0 | 0.0002332151888924 | 53 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA41462 34480517 | 4 | 2867985 | 2868037 | Syncephalastrum racemosum 13706 | TCG|GTATGTGTCG...TATGTCTCACAA/CTATGTCTCACA...CATAG|ATG | 0 | 1 | 24.642 |
193751117 | GT-AG | 0 | 4.197882088900965e-05 | 50 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA41462 34480517 | 5 | 2867525 | 2867574 | Syncephalastrum racemosum 13706 | AAG|GTACACGATC...AAGGTCATATTA/AAGAAACTCACG...GTCAG|CAT | 2 | 1 | 34.432 |
193751118 | GT-AG | 0 | 1.000000099473604e-05 | 60 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA41462 34480517 | 6 | 2866820 | 2866879 | Syncephalastrum racemosum 13706 | AAG|GTCGGTTCAA...TATCTCTTGTTT/CTTGTTTTCATC...GATAG|GAT | 2 | 1 | 49.833 |
193751119 | GT-AG | 0 | 0.0047974932246346 | 54 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA41462 34480517 | 7 | 2866259 | 2866312 | Syncephalastrum racemosum 13706 | TTG|GTAACTTTAA...AATACCGTACTA/AAATTGCTAATC...ATCAG|GTG | 2 | 1 | 61.939 |
193751120 | GT-AG | 0 | 1.000000099473604e-05 | 54 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA41462 34480517 | 8 | 2865819 | 2865872 | Syncephalastrum racemosum 13706 | CCA|GTAAGTAACT...CTGTGTTCAACA/CCTGTGTTCAAC...TTTAG|TTG | 1 | 1 | 71.156 |
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]);