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)
10 rows where transcript_id = 34480580
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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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
193751636 | GT-AG | 0 | 1.000000099473604e-05 | 73 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA429523 34480580 | 1 | 951203 | 951275 | Syncephalastrum racemosum 13706 | TGG|GTAAGTAAAA...GCCATCTTATTC/AGCCATCTTATT...TTTAG|GCG | 1 | 1 | 6.81 |
193751637 | GT-AG | 0 | 1.000000099473604e-05 | 56 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA429523 34480580 | 2 | 950705 | 950760 | Syncephalastrum racemosum 13706 | CAA|GTAAGGATCT...GGTCTCTTACAT/AGGTCTCTTACA...GTCAG|GGT | 2 | 1 | 21.937 |
193751638 | GT-AG | 0 | 1.000000099473604e-05 | 53 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA429523 34480580 | 3 | 950485 | 950537 | Syncephalastrum racemosum 13706 | AGG|GTAAGTGCAT...TGTTCCTCACAT/ATGTTCCTCACA...CCTAG|CTT | 1 | 1 | 27.652 |
193751639 | GT-AG | 0 | 1.000000099473604e-05 | 51 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA429523 34480580 | 4 | 950169 | 950219 | Syncephalastrum racemosum 13706 | GAG|GTAGAGCTCA...ATTGCCTAATCA/CATTGCCTAATC...CATAG|TGA | 2 | 1 | 36.721 |
193751640 | GT-AG | 0 | 1.000000099473604e-05 | 53 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA429523 34480580 | 5 | 950006 | 950058 | Syncephalastrum racemosum 13706 | CTG|GTAGGGATAA...GAGTTATTAAGC/GAGTTATTAAGC...TGTAG|GCT | 1 | 1 | 40.486 |
193751641 | GT-AG | 0 | 0.0001476548651156 | 50 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA429523 34480580 | 6 | 949854 | 949903 | Syncephalastrum racemosum 13706 | TTT|GTATGTGCAA...ATGTTCTAGAGG/AGAGGACTGACG...TATAG|TCG | 1 | 1 | 43.977 |
193751642 | GT-AG | 0 | 1.000000099473604e-05 | 47 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA429523 34480580 | 7 | 949460 | 949506 | Syncephalastrum racemosum 13706 | GAA|GTAAGTATGC...TCGACTGTGACT/CTGTGACTGAGA...ACTAG|ATC | 0 | 1 | 55.852 |
193751643 | GT-AG | 0 | 1.000000099473604e-05 | 140 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA429523 34480580 | 8 | 948928 | 949067 | Syncephalastrum racemosum 13706 | AGG|GTAAGAAACA...GCGGTCTGAACT/TGCGGTCTGAAC...ATCAG|TGT | 2 | 1 | 69.268 |
193751644 | GT-AG | 0 | 1.000000099473604e-05 | 54 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA429523 34480580 | 9 | 948739 | 948792 | Syncephalastrum racemosum 13706 | AAG|GTAAGTGAAA...CTAGACTTGATG/TTGATGCTAAAC...AACAG|AGG | 2 | 1 | 73.888 |
193751645 | GT-AG | 0 | 1.000000099473604e-05 | 67 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA429523 34480580 | 10 | 948188 | 948254 | Syncephalastrum racemosum 13706 | AGG|GTGAGTACAC...ACTCGTTTGACA/AAGATATTCAGT...TGTAG|CTC | 0 | 1 | 90.452 |
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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]);