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 = 34480556
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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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
193751429 | GT-AG | 0 | 0.0004403446928878 | 48 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA484135 34480556 | 1 | 4466668 | 4466715 | Syncephalastrum racemosum 13706 | CCG|GTACGTTTAA...ATCACTTTCACT/CTTTCACTCATA...AGAAG|AGC | 1 | 1 | 18.874 |
193751430 | GT-AG | 0 | 1.000000099473604e-05 | 57 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA484135 34480556 | 2 | 4466557 | 4466613 | Syncephalastrum racemosum 13706 | AAG|GTAAGGAAGG...TGACTCATATGT/AGATGACTCATA...GCTAG|ATG | 1 | 1 | 20.553 |
193751431 | GT-AG | 0 | 1.000000099473604e-05 | 56 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA484135 34480556 | 3 | 4466385 | 4466440 | Syncephalastrum racemosum 13706 | CTG|GTAAGTCTGA...TTTGTCTCACTT/TTTTGTCTCACT...ACTAG|ATC | 0 | 1 | 24.16 |
193751432 | GT-AG | 0 | 1.000000099473604e-05 | 51 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA484135 34480556 | 4 | 4466195 | 4466245 | Syncephalastrum racemosum 13706 | AAG|GTAAACCAAA...CGACTCTTATAT/CCGACTCTTATA...CGTAG|ATT | 1 | 1 | 28.483 |
193751433 | GT-AG | 0 | 7.919783552918976e-05 | 48 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA484135 34480556 | 5 | 4465308 | 4465355 | Syncephalastrum racemosum 13706 | GAG|GTAAGCCTGT...ATTATTTTATTT/ATTTTATTTATG...ATTAG|CCA | 0 | 1 | 54.571 |
193751434 | GT-AG | 0 | 1.172619687852793e-05 | 56 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA484135 34480556 | 6 | 4465189 | 4465244 | Syncephalastrum racemosum 13706 | GCG|GTATGTGAAT...ATTTACTAAGTA/CATTTACTAAGT...TATAG|ATC | 0 | 1 | 56.53 |
193751435 | GT-AG | 0 | 1.000000099473604e-05 | 59 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA484135 34480556 | 7 | 4464960 | 4465018 | Syncephalastrum racemosum 13706 | GGA|GTAAGTGATC...ATATCCTAAAGT/TATAACCTGACA...TGTAG|AAT | 2 | 1 | 61.816 |
193751436 | GT-AG | 0 | 1.000000099473604e-05 | 60 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA484135 34480556 | 8 | 4463783 | 4463842 | Syncephalastrum racemosum 13706 | CAG|GTAAAGCAAA...ACATTCTTATCC/AACATTCTTATC...TGCAG|ATC | 0 | 1 | 96.549 |
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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]);