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 = 34480575
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Suggested facets: dinucleotide_pair, score, phase, in_cds
id ▼ | dinucleotide_pair | is_minor | score | length | transcript_id | ordinal_index | start | end | taxonomy_id | scored_motifs | phase | in_cds | relative_position |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
193751595 | GT-AG | 0 | 1.000000099473604e-05 | 53 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559529 34480575 | 1 | 1313620 | 1313672 | Syncephalastrum racemosum 13706 | AAG|GTACGTCCCA...ATACTCTCATTC/CATACTCTCATT...TACAG|ATT | 1 | 1 | 27.138 |
193751596 | GT-AG | 0 | 6.123323202094957e-05 | 45 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559529 34480575 | 2 | 1314214 | 1314258 | Syncephalastrum racemosum 13706 | ACA|GTAAGTTGGG...CTTCTCTTACAT/CCTTCTCTTACA...TATAG|GCG | 2 | 1 | 43.487 |
193751597 | GT-AG | 0 | 0.0044532356994583 | 58 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559529 34480575 | 3 | 1314449 | 1314506 | Syncephalastrum racemosum 13706 | AAG|GTATACCGTT...CGGGTTTTGAAA/GATGTACTCACT...AGCAG|CGG | 0 | 1 | 49.229 |
193751598 | GT-AG | 0 | 4.282214043003273e-05 | 46 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559529 34480575 | 4 | 1314579 | 1314624 | Syncephalastrum racemosum 13706 | GAG|GTAAGCTCGA...GAAACTTTACTC/ACTTTACTCATT...AATAG|ATC | 0 | 1 | 51.405 |
193751599 | GT-AG | 0 | 2.794901123419285e-05 | 48 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559529 34480575 | 5 | 1314864 | 1314911 | Syncephalastrum racemosum 13706 | AGA|GTAAGTCTCC...ATACTCTGAATT/TCTGAATTCACA...ATTAG|GAC | 2 | 1 | 58.628 |
193751600 | GT-AG | 0 | 1.000000099473604e-05 | 70 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559529 34480575 | 6 | 1315212 | 1315281 | Syncephalastrum racemosum 13706 | CAT|GTGAGTGAAT...CATACTTTATCT/ATTTCACTCATA...CAAAG|TTT | 2 | 1 | 67.694 |
193751601 | GT-AG | 0 | 1.000000099473604e-05 | 63 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559529 34480575 | 7 | 1315668 | 1315730 | Syncephalastrum racemosum 13706 | GTG|GTAAGTAAAG...GCGCTCATGACC/ACAGCGCTCATG...CTTAG|AGG | 1 | 1 | 79.359 |
193757521 | CT-AC | 0 | 0.0102423744145367 | 55 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559529 34480575 | 8 | 1316294 | 1316348 | Syncephalastrum racemosum 13706 | TAT|CTTTGCAATG...TTTTCCTTTGTC/TGAGCCCTTACA...CTTAC|CTC | 0 | 96.374 |
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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]);