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)
11 rows where transcript_id = 34480558
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
193751443 | GT-AG | 0 | 0.0004119225992592 | 50 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 | 1 | 4358713 | 4358762 | Syncephalastrum racemosum 13706 | CAG|GTATGCAAAC...CGTTACTTAAAT/CCGTTACTTAAA...AACAG|GTT | 0 | 1 | 10.432 |
193751444 | GT-AG | 0 | 1.000000099473604e-05 | 70 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 | 2 | 4358388 | 4358457 | Syncephalastrum racemosum 13706 | AAG|GTAAAAGGAA...TCATTTTTGATT/TCATTTTTGATT...GCCAG|GCC | 0 | 1 | 18.421 |
193751445 | GT-AG | 0 | 1.000000099473604e-05 | 56 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 | 3 | 4358127 | 4358182 | Syncephalastrum racemosum 13706 | CGG|GTAAGTTCCT...AGATACTAATCG/AAGATACTAATC...TATAG|AGC | 1 | 1 | 24.843 |
193751446 | GT-AG | 0 | 1.9449192053720908e-05 | 60 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 | 4 | 4357578 | 4357637 | Syncephalastrum racemosum 13706 | ATG|GTAAGTCTGG...TTGATTTTAATT/TTGATTTTAATT...CTCAG|ATA | 1 | 1 | 40.163 |
193751447 | GT-AG | 0 | 1.000000099473604e-05 | 57 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 | 5 | 4357102 | 4357158 | Syncephalastrum racemosum 13706 | AAG|GTAAAAACAG...TTGGTATTGACA/TTGGTATTGACA...TATAG|GGC | 0 | 1 | 53.289 |
193751448 | GT-AG | 0 | 8.582771278160254e-05 | 65 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 | 6 | 4356886 | 4356950 | Syncephalastrum racemosum 13706 | GCC|GTAAGTTAAA...ACACTCATGACT/ATGACACTCATG...GTTAG|AGC | 1 | 1 | 58.02 |
193751449 | GT-AG | 0 | 1.000000099473604e-05 | 62 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 | 7 | 4356435 | 4356496 | Syncephalastrum racemosum 13706 | ATT|GTAAGTGCAA...CTGTTTGTAACA/CTGTTTGTAACA...TTTAG|ACT | 0 | 1 | 70.207 |
193751450 | GT-AG | 0 | 1.000000099473604e-05 | 56 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 | 8 | 4356178 | 4356233 | Syncephalastrum racemosum 13706 | AAG|GTAAGGAAAA...AAGCTCATGTTT/CGTAAGCTCATG...AAAAG|AAC | 0 | 1 | 76.504 |
193751451 | GT-AG | 0 | 1.000000099473604e-05 | 52 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 | 9 | 4355932 | 4355983 | Syncephalastrum racemosum 13706 | AAA|GTAAGTGCAA...GTCTCCTTACAT/ATGATACTGATC...CATAG|ACT | 2 | 1 | 82.581 |
193751452 | GT-AG | 0 | 1.000000099473604e-05 | 49 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 | 10 | 4355705 | 4355753 | Syncephalastrum racemosum 13706 | AAG|GTAAGCCCAT...CGGGTTTTAACA/CGGGTTTTAACA...CACAG|GAG | 0 | 1 | 88.158 |
193751453 | GT-AG | 0 | 1.000000099473604e-05 | 64 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 | 11 | 4355316 | 4355379 | Syncephalastrum racemosum 13706 | AAG|GTAAGAAAGA...CATGTCCTGACA/ATCTGATTCATT...TGTAG|GTA | 1 | 1 | 98.34 |
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]);