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 = 34480546
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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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
193751369 | GT-AG | 0 | 0.0007460560471953 | 77 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482733 34480546 | 1 | 2474191 | 2474267 | Syncephalastrum racemosum 13706 | CTG|GTAACTAACT...ATTTCCTTCGTG/GATTCACTCATT...GTCAG|CTT | 1 | 1 | 3.69 |
193751370 | GT-AG | 0 | 0.0011763436136638 | 202 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482733 34480546 | 2 | 2473692 | 2473893 | Syncephalastrum racemosum 13706 | CCA|GTAAGTTCTT...TTCTTCTTATTT/CTTCTTCTTATT...TTAAG|GTA | 1 | 1 | 12.53 |
193751371 | GT-AG | 0 | 1.000000099473604e-05 | 53 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482733 34480546 | 3 | 2473108 | 2473160 | Syncephalastrum racemosum 13706 | TGG|GTATGTGAAT...GATTCGTTCGCT/CGTTCGCTCATT...TTTAG|GCC | 1 | 1 | 28.333 |
193751372 | GT-AG | 0 | 1.000000099473604e-05 | 52 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482733 34480546 | 4 | 2471145 | 2471196 | Syncephalastrum racemosum 13706 | AAG|GTAAGCATAG...TCGTCTATACTC/TCTATACTCACA...TCTAG|GCA | 1 | 1 | 85.208 |
193751373 | GT-AG | 0 | 3.2981033878997035e-05 | 53 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482733 34480546 | 5 | 2470859 | 2470911 | Syncephalastrum racemosum 13706 | TAC|GTAAGTCAAA...TCAGCCTTGACC/TCTGATATTATC...CCTAG|GAA | 0 | 1 | 92.143 |
193751374 | GT-AG | 0 | 1.000000099473604e-05 | 58 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482733 34480546 | 6 | 2470561 | 2470618 | Syncephalastrum racemosum 13706 | CTG|GTACGGGCTA...CCATCTGTGACG/TGTCAGCTAACC...CATAG|GAG | 0 | 1 | 99.286 |
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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]);