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 = 6831588
This data as json, CSV (advanced)
Suggested facets: score, phase
id ▼ | dinucleotide_pair | is_minor | score | length | transcript_id | ordinal_index | start | end | taxonomy_id | scored_motifs | phase | in_cds | relative_position |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
35540627 | GT-AG | 0 | 0.0054509623843417 | 2486 | rna-XM_009707474.1 6831588 | 1 | 33363 | 35848 | Cariama cristata 54380 | AAG|GTATGTTTAA...CATTTTTTGATT/CATTTTTTGATT...TGCAG|GCC | 0 | 1 | 0.658 |
35540628 | GT-AG | 0 | 1.000000099473604e-05 | 816 | rna-XM_009707474.1 6831588 | 2 | 32487 | 33302 | Cariama cristata 54380 | CTG|GTAAGGCAGT...TCTCCCTCAATA/TTCTCCCTCAAT...TGCAG|GAA | 0 | 1 | 5.044 |
35540629 | GT-AG | 0 | 4.936136206043261e-05 | 892 | rna-XM_009707474.1 6831588 | 3 | 31415 | 32306 | Cariama cristata 54380 | CAG|GTAAATTTCA...TTAATTTTATCT/ATTAATTTTATC...TATAG|GAA | 0 | 1 | 18.202 |
35540630 | GT-AG | 0 | 0.0002855114979612 | 858 | rna-XM_009707474.1 6831588 | 4 | 30330 | 31187 | Cariama cristata 54380 | CAG|GTATAAATTA...TTCCCCTGAATG/TCCGGTTTTATC...CACAG|ACT | 2 | 1 | 34.795 |
35540631 | GT-AG | 0 | 1.000000099473604e-05 | 538 | rna-XM_009707474.1 6831588 | 5 | 29694 | 30231 | Cariama cristata 54380 | AAG|GTGAGCTGGG...TATGTTGTATTG/CTGTGTGTCACC...TGCAG|GTG | 1 | 1 | 41.959 |
35540632 | GT-AG | 0 | 1.000000099473604e-05 | 1688 | rna-XM_009707474.1 6831588 | 6 | 27788 | 29475 | Cariama cristata 54380 | AAG|GTGCAGAGAA...TTCAGTTTGACA/TTCAGTTTGACA...TGCAG|AAC | 0 | 1 | 57.895 |
35540633 | GT-AG | 0 | 1.000000099473604e-05 | 629 | rna-XM_009707474.1 6831588 | 7 | 26933 | 27561 | Cariama cristata 54380 | AGG|GTGAGTCACT...TCTCCCATACTT/CTCTCTGTCATT...GCCAG|CAT | 1 | 1 | 74.415 |
35540634 | GT-AG | 0 | 1.000000099473604e-05 | 654 | rna-XM_009707474.1 6831588 | 8 | 26031 | 26684 | Cariama cristata 54380 | AAG|GTGGGTGATG...TCCCCTTTTGTT/GAACAACTCACA...TTCAG|AAA | 0 | 1 | 92.544 |
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]);