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)
7 rows where transcript_id = 3485083
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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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
17202890 | GT-AG | 0 | 3.206354497467176e-05 | 5735 | rna-gnl|WGS:SAUD|Avbf_05732-RA_mrna 3485083 | 1 | 94065 | 99799 | Armadillidium vulgare 13347 | GAA|GTTGATTTAA...TATATTTTATAT/TTATATTTTATA...TATAG|AAT | 2 | 1 | 5.316 |
17202891 | GT-AG | 0 | 2.171200558907955e-05 | 256 | rna-gnl|WGS:SAUD|Avbf_05732-RA_mrna 3485083 | 2 | 93298 | 93553 | Armadillidium vulgare 13347 | GAG|GTATGACATA...ATCTTTTTATTT/TTTTTTTTCATC...TTTAG|GCA | 0 | 1 | 42.026 |
17202892 | GT-AG | 0 | 1.000000099473604e-05 | 1107 | rna-gnl|WGS:SAUD|Avbf_05732-RA_mrna 3485083 | 3 | 92077 | 93183 | Armadillidium vulgare 13347 | AAG|GTTACAGTAT...ATATTTTTATTG/GATATTTTTATT...TTTAG|AAA | 0 | 1 | 50.216 |
17202893 | GT-AG | 0 | 0.0002677346215974 | 1068 | rna-gnl|WGS:SAUD|Avbf_05732-RA_mrna 3485083 | 4 | 90937 | 92004 | Armadillidium vulgare 13347 | AAG|GTAAATTTTC...TTCATCTTATTC/ATTCATCTTATT...TTCAG|ACA | 0 | 1 | 55.388 |
17202898 | TT-AG | 0 | 0.005590078734481 | 434 | rna-gnl|WGS:SAUD|Avbf_05732-RA_mrna 3485083 | 5 | 90363 | 90796 | Armadillidium vulgare 13347 | AAA|TTATGGTTAA...TAATTCTTATTT/ATAATTCTTATT...TCTAG|GTT | 0 | 65.445 | |
17202899 | GT-AG | 0 | 3.08288608203915e-05 | 2244 | rna-gnl|WGS:SAUD|Avbf_05732-RA_mrna 3485083 | 6 | 88062 | 90305 | Armadillidium vulgare 13347 | AAG|GTATTGGTTC...AAAGTCCTAATA/TAATTTTTCAGT...TTTAG|ATT | 0 | 69.54 | |
17202900 | GT-AG | 0 | 1.000000099473604e-05 | 727 | rna-gnl|WGS:SAUD|Avbf_05732-RA_mrna 3485083 | 7 | 87188 | 87914 | Armadillidium vulgare 13347 | AAG|GTAATATTGT...CGATTTTTAAAA/ATATTATTAATT...TTCAG|GCA | 0 | 80.101 |
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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]);