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 = 34480571
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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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
193751553 | GT-AG | 0 | 2.4683751307337792e-05 | 87 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA465269 34480571 | 1 | 467354 | 467440 | Syncephalastrum racemosum 13706 | ATT|GTAAGATTCA...TTTTTTTTGCCA/TTTTTGCCAATC...TGTAG|GAC | 0 | 1 | 5.589 |
193751554 | GT-AG | 0 | 0.0006480240744821 | 83 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA465269 34480571 | 2 | 466896 | 466978 | Syncephalastrum racemosum 13706 | AAG|GTATTATATA...CATTTTTTATTG/TTTTTATTGATT...ATTAG|TTT | 0 | 1 | 18.064 |
193751555 | GT-AG | 0 | 1.000000099473604e-05 | 174 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA465269 34480571 | 3 | 466637 | 466810 | Syncephalastrum racemosum 13706 | CAG|GTAAATACAT...TATATTTTATTT/GTATATTTTATT...ATTAG|ACA | 1 | 1 | 20.892 |
193751556 | GT-AG | 0 | 1.000000099473604e-05 | 73 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA465269 34480571 | 4 | 466477 | 466549 | Syncephalastrum racemosum 13706 | AAG|GTAATAAAGC...TGGTACTTACCA/GTGGTACTTACC...GTTAG|AAT | 1 | 1 | 23.786 |
193751557 | GT-AG | 0 | 1.000000099473604e-05 | 70 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA465269 34480571 | 5 | 466039 | 466108 | Syncephalastrum racemosum 13706 | TTG|GTAAGAAAAT...ATGACTTTGAAT/GATGAACTCATC...GATAG|GAG | 0 | 1 | 36.028 |
193751558 | GT-AG | 0 | 1.000000099473604e-05 | 80 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA465269 34480571 | 6 | 465031 | 465110 | Syncephalastrum racemosum 13706 | AAG|GTAAAAAGGA...CTGACCTGATCC/GATATGCTGACC...CGTAG|AGG | 1 | 1 | 66.9 |
193751559 | GT-AG | 0 | 1.6338997715453988e-05 | 73 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA465269 34480571 | 7 | 464826 | 464898 | Syncephalastrum racemosum 13706 | TGG|GTAAGATGTC...GTTGCTTTATCT/CTTTATCTAATG...AAAAG|ACA | 1 | 1 | 71.291 |
193751560 | GT-AG | 0 | 1.000000099473604e-05 | 80 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA465269 34480571 | 8 | 464539 | 464618 | Syncephalastrum racemosum 13706 | AAA|GTAAGTCGTA...GGGTCCTTCCCC/GTTTTTCTCACG...TCCAG|AGC | 1 | 1 | 78.177 |
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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]);