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 = 26266716
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Suggested facets: 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
145335471 | GT-AG | 0 | 1.885695344629852e-05 | 753 | rna-gnl|WGS:JTDE|EG68_00029 26266716 | 2 | 195098 | 195850 | Paragonimus skrjabini miyazakii 59628 | ATG|GTAGGTTTAT...CCACTATTGATC/CCACTATTGATC...CACAG|AAC | 0 | 1 | 25.0 |
145335472 | GT-AG | 0 | 1.000000099473604e-05 | 5854 | rna-gnl|WGS:JTDE|EG68_00029 26266716 | 3 | 196226 | 202079 | Paragonimus skrjabini miyazakii 59628 | GCT|GTGAGTCCTG...CAGTTCTTATTT/ACAGTTCTTATT...TATAG|GAA | 0 | 1 | 40.836 |
145335473 | GT-AG | 0 | 1.000000099473604e-05 | 10471 | rna-gnl|WGS:JTDE|EG68_00029 26266716 | 4 | 202260 | 212730 | Paragonimus skrjabini miyazakii 59628 | AAG|GTCAGTAAGT...CGTTTGTTGATT/CGTTTGTTGATT...CGTAG|AAG | 0 | 1 | 48.438 |
145335474 | GT-AG | 0 | 1.000000099473604e-05 | 874 | rna-gnl|WGS:JTDE|EG68_00029 26266716 | 5 | 212896 | 213769 | Paragonimus skrjabini miyazakii 59628 | AAG|GTTAGTAGAA...CTCCCCGAAATC/CCTATTCCCACA...CACAG|ACG | 0 | 1 | 55.405 |
145335475 | GT-AG | 0 | 1.000000099473604e-05 | 8489 | rna-gnl|WGS:JTDE|EG68_00029 26266716 | 6 | 214136 | 222624 | Paragonimus skrjabini miyazakii 59628 | GAG|GTTAGCCACC...ATGTGTTTACAG/AGCTTGTTCATT...CACAG|GTC | 0 | 1 | 70.861 |
145335476 | GT-AG | 0 | 1.000000099473604e-05 | 17541 | rna-gnl|WGS:JTDE|EG68_00029 26266716 | 7 | 222760 | 240300 | Paragonimus skrjabini miyazakii 59628 | CAG|GTTAGTCTCC...CGCTTTTTACTT/TCGCTTTTTACT...TTCAG|CTG | 0 | 1 | 76.562 |
145335477 | GT-AG | 0 | 1.000000099473604e-05 | 5170 | rna-gnl|WGS:JTDE|EG68_00029 26266716 | 8 | 240379 | 245548 | Paragonimus skrjabini miyazakii 59628 | ACG|GTGAGTTCTA...TTTTACTTGACG/ATTGGTTTTACT...TACAG|CTA | 0 | 1 | 79.856 |
145335478 | GT-AG | 0 | 1.000000099473604e-05 | 3403 | rna-gnl|WGS:JTDE|EG68_00029 26266716 | 9 | 245658 | 249060 | Paragonimus skrjabini miyazakii 59628 | AAA|GTGAGAAACG...TTCACTTTGACT/GTCGTGTTCACT...TTCAG|ATT | 1 | 1 | 84.459 |
145335479 | GT-AG | 0 | 0.0002445113208955 | 131 | rna-gnl|WGS:JTDE|EG68_00029 26266716 | 10 | 249155 | 249285 | Paragonimus skrjabini miyazakii 59628 | GGC|GTAAGTGTTG...TTGCCTTTATTA/CCTCTTCTAATC...TTTAG|ATA | 2 | 1 | 88.429 |
145335480 | GT-AG | 0 | 1.000000099473604e-05 | 36192 | rna-gnl|WGS:JTDE|EG68_00029 26266716 | 1 | 158399 | 194590 | Paragonimus skrjabini miyazakii 59628 | TAG|GTAAGTCAAT...TTTTTTTTAATT/TTTTTTTTAATT...CACAG|ATA | 0 | 5.997 |
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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]);