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 = 34480540
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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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
193751328 | GT-AG | 0 | 1.000000099473604e-05 | 57 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559548 34480540 | 1 | 1380878 | 1380934 | Syncephalastrum racemosum 13706 | AAG|GTCAGGAAAT...GTTCTCATAGTC/TCAGTTCTCATA...AATAG|GTG | 1 | 1 | 5.427 |
193751329 | GT-AG | 0 | 1.000000099473604e-05 | 74 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559548 34480540 | 2 | 1381249 | 1381322 | Syncephalastrum racemosum 13706 | CAG|GTGTGACAGT...CACTTTTTGACG/CACTTTTTGACG...TCTAG|ATG | 0 | 1 | 14.396 |
193751330 | GT-AG | 0 | 1.000000099473604e-05 | 60 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559548 34480540 | 3 | 1381506 | 1381565 | Syncephalastrum racemosum 13706 | ATG|GTGCGTATCA...ACAATTATGATT/GAAGGTCTGACA...TTTAG|CGG | 0 | 1 | 19.623 |
193751331 | GT-AG | 0 | 1.000000099473604e-05 | 64 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559548 34480540 | 4 | 1381680 | 1381743 | Syncephalastrum racemosum 13706 | AAG|GTACTTGAGG...TATGACATAACA/CATCTACTAACT...CGCAG|GCC | 0 | 1 | 22.879 |
193751332 | GT-AG | 0 | 1.000000099473604e-05 | 68 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559548 34480540 | 5 | 1381894 | 1381961 | Syncephalastrum racemosum 13706 | AAA|GTTAGTATAA...CTTACATTAATA/CTTACATTAATA...CGCAG|CTG | 0 | 1 | 27.164 |
193751333 | GT-AG | 0 | 1.000000099473604e-05 | 61 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559548 34480540 | 6 | 1382149 | 1382209 | Syncephalastrum racemosum 13706 | AAG|GTAAAGCAGT...GCAGCTTTAGCT/CTTTAGCTGATG...AATAG|TTC | 1 | 1 | 32.505 |
193751334 | GT-AG | 0 | 1.000000099473604e-05 | 67 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559548 34480540 | 7 | 1383973 | 1384039 | Syncephalastrum racemosum 13706 | ATG|GTACGGCATA...AGTGTCTTGCAA/ACGACAATGATT...TCTAG|CTT | 0 | 1 | 82.862 |
193751335 | GT-AG | 0 | 1.000000099473604e-05 | 63 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559548 34480540 | 8 | 1384067 | 1384129 | Syncephalastrum racemosum 13706 | AAG|GTAATGGCAT...TGTGTCCTATTA/AAGATGCTCACT...TATAG|AGT | 0 | 1 | 83.633 |
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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]);