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)
14 rows where transcript_id = 3485075
This data as json, CSV (advanced)
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
17202857 | GT-AG | 0 | 8.864795859857959e-05 | 20070 | rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 | 1 | 2581 | 22650 | Armadillidium vulgare 13347 | TAT|GTAAATAAAA...TTTTCTTTATTA/ATTTTCTTTATT...TACAG|TTT | 2 | 1 | 0.79 |
17202858 | GT-AG | 0 | 1.000000099473604e-05 | 108 | rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 | 2 | 22793 | 22900 | Armadillidium vulgare 13347 | AAA|GTGAGTACAT...TTATTTTTATCA/ATTATTTTTATC...CATAG|GTT | 0 | 1 | 7.385 |
17202859 | GT-AG | 0 | 1.000000099473604e-05 | 3984 | rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 | 3 | 23006 | 26989 | Armadillidium vulgare 13347 | AAG|GTTAGTAACT...ATATATATATAT/TATATATATATA...ATAAG|AAT | 0 | 1 | 12.262 |
17202860 | GT-AG | 0 | 1.000000099473604e-05 | 117 | rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 | 4 | 27152 | 27268 | Armadillidium vulgare 13347 | CAG|GTAGAACCTT...ATTTCTTTACAT/TATTTCTTTACA...TTTAG|GGG | 0 | 1 | 19.786 |
17202861 | GT-AG | 0 | 0.0050325960337273 | 1127 | rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 | 5 | 27410 | 28536 | Armadillidium vulgare 13347 | AAG|GTATTTTTAC...AAAATATTAATT/GTTTCGCTCATT...TTCAG|ATT | 0 | 1 | 26.335 |
17202862 | GT-AG | 0 | 0.0053259019500322 | 2383 | rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 | 6 | 28699 | 31081 | Armadillidium vulgare 13347 | AAG|GTATTTTATA...TAGATTTTATTA/TTAGATTTTATT...TTTAG|GCA | 0 | 1 | 33.86 |
17202863 | GT-AG | 0 | 3.465237112332676e-05 | 1354 | rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 | 7 | 31130 | 32483 | Armadillidium vulgare 13347 | TTG|GTAAACGCCC...GCTCCTTTGAAA/TAACATTTCAGT...TTCAG|TAT | 0 | 1 | 36.089 |
17202864 | GT-AG | 0 | 1.000000099473604e-05 | 1157 | rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 | 8 | 32646 | 33802 | Armadillidium vulgare 13347 | GAG|GTAAGGATCT...TATATATTATAT/TATTATATTATA...TAAAG|ACG | 0 | 1 | 43.614 |
17202865 | GT-AG | 0 | 1.000000099473604e-05 | 1203 | rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 | 9 | 33870 | 35072 | Armadillidium vulgare 13347 | TTG|GTTTTAAGGA...TGTTTTTTAGAT/TTGATGTTTACA...TTTAG|ATT | 1 | 1 | 46.725 |
17202870 | GT-AG | 0 | 2.078224077297442e-05 | 1079 | rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 | 10 | 35219 | 36297 | Armadillidium vulgare 13347 | CAG|GTAAGTTATC...GATTTTTTAACT/TATTTTTTTATT...TTTAG|TAA | 0 | 53.507 | |
17202871 | GT-AG | 0 | 0.0137764277647543 | 373 | rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 | 11 | 36472 | 36844 | Armadillidium vulgare 13347 | TTT|GTATGATTAT...TAAGTTTTATTT/ATTTGTATCATT...TATAG|AGA | 0 | 61.588 | |
17202872 | GT-AG | 0 | 1.000000099473604e-05 | 3694 | rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 | 12 | 36942 | 40635 | Armadillidium vulgare 13347 | TCT|GTGAGTATTT...TCAACCTTGAAC/AAAATACTCATT...TACAG|AGA | 0 | 66.094 | |
17202873 | GT-AG | 0 | 7.022542018986612e-05 | 3778 | rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 | 13 | 40821 | 44598 | Armadillidium vulgare 13347 | AAA|GTAGGTTATA...CTAATTTTATAA/GTAATACTGATT...AACAG|AAA | 0 | 74.686 | |
17202874 | GT-AG | 0 | 3.3431405662649555e-05 | 2142 | rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 | 14 | 44712 | 46853 | Armadillidium vulgare 13347 | TTA|GTAAGTTATG...CTTCGTTTATTT/ACTTCGTTTATT...TCTAG|GGA | 0 | 79.935 |
Advanced export
JSON shape: default, array, newline-delimited, object
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]);