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 = 34480488
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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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
193750838 | GT-AG | 0 | 1.000000099473604e-05 | 58 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA520473 34480488 | 1 | 3023337 | 3023394 | Syncephalastrum racemosum 13706 | ATG|GTAAAGAATT...GTTACCTAAAAC/ATTCTAGTCACA...ATCAG|GCA | 1 | 1 | 0.869 |
193750839 | GT-AG | 0 | 0.0016925625373869 | 56 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA520473 34480488 | 2 | 3022442 | 3022497 | Syncephalastrum racemosum 13706 | CCG|GTATGTCTGG...TTCTCATTGATG/GTCTTTCTCATT...TGTAG|CCC | 0 | 1 | 13.438 |
193750840 | GT-AG | 0 | 1.000000099473604e-05 | 51 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA520473 34480488 | 3 | 3022233 | 3022283 | Syncephalastrum racemosum 13706 | CAT|GTAAGTGCTC...CATGCTCTAATT/CATGCTCTAATT...CCTAG|TAC | 2 | 1 | 15.805 |
193750841 | GT-AG | 0 | 1.000000099473604e-05 | 50 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA520473 34480488 | 4 | 3021951 | 3022000 | Syncephalastrum racemosum 13706 | CTG|GTACGCGAAA...AGGGCACTAAAG/TAAAGGTTTATT...CGCAG|GGT | 0 | 1 | 19.281 |
193750842 | GT-AG | 0 | 0.0077932782454191 | 51 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA520473 34480488 | 5 | 3021755 | 3021805 | Syncephalastrum racemosum 13706 | AAA|GTATGATTTT...ACTTCCATGATC/CCATAGCTTACG...TACAG|ACT | 1 | 1 | 21.453 |
193750843 | GT-AG | 0 | 1.000000099473604e-05 | 53 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA520473 34480488 | 6 | 3021511 | 3021563 | Syncephalastrum racemosum 13706 | AAG|GTACTACCAC...GAATCCTAATCG/AGAATCCTAATC...TCTAG|GAG | 0 | 1 | 24.315 |
193750844 | GT-AG | 0 | 1.000000099473604e-05 | 62 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA520473 34480488 | 7 | 3018301 | 3018362 | Syncephalastrum racemosum 13706 | TTT|GTAAGTCAGG...CAGATACTAATA/CAGATACTAATA...CATAG|CAT | 1 | 1 | 71.476 |
193750845 | GT-AG | 0 | 1.000000099473604e-05 | 57 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA520473 34480488 | 8 | 3017865 | 3017921 | Syncephalastrum racemosum 13706 | TGA|GTAAGTCGAG...TATGCTTTTCTA/CCGATATTCATG...TCCAG|AGA | 2 | 1 | 77.154 |
193750846 | GT-AG | 0 | 7.307813674413435e-05 | 54 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA520473 34480488 | 9 | 3017549 | 3017602 | Syncephalastrum racemosum 13706 | CGT|GTAAGTATCC...TATGCCTAATCA/ATATGCCTAATC...ATCAG|ATG | 0 | 1 | 81.079 |
193750847 | GT-AG | 0 | 3.4950344043893576e-05 | 56 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA520473 34480488 | 10 | 3017145 | 3017200 | Syncephalastrum racemosum 13706 | AAG|GTATGTAAAC...AAAGTCTCAACT/AAAAGTCTCAAC...CTTAG|GCA | 0 | 1 | 86.292 |
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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]);