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 = 2279627
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Suggested facets: score, phase
id ▼ | dinucleotide_pair | is_minor | score | length | transcript_id | ordinal_index | start | end | taxonomy_id | scored_motifs | phase | in_cds | relative_position |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
12239982 | GT-AG | 0 | 0.001052726604109 | 61 | rna-XM_027996609.1 2279627 | 1 | 1249822 | 1249882 | Aphis gossypii 80765 | CAG|GTACACTATA...TGCTTATTAATT/TGTATGCTTATT...TGTAG|GAT | 0 | 1 | 11.201 |
12239983 | GT-AG | 0 | 6.219864156582559e-05 | 84 | rna-XM_027996609.1 2279627 | 2 | 1250002 | 1250085 | Aphis gossypii 80765 | CAG|GTATTTAATT...TCACTCATAAAA/ATTTCACTCATA...TCTAG|GAT | 2 | 1 | 17.641 |
12239984 | GT-AG | 0 | 1.000000099473604e-05 | 76 | rna-XM_027996609.1 2279627 | 3 | 1250201 | 1250276 | Aphis gossypii 80765 | AGA|GTGAGTAACT...GTATATTTATAT/TGTATATTTATA...TTTAG|TTT | 0 | 1 | 23.864 |
12239985 | GT-AG | 0 | 0.000293395489597 | 353 | rna-XM_027996609.1 2279627 | 4 | 1250436 | 1250788 | Aphis gossypii 80765 | AAG|GTGCCCAGAT...TAATTATTAATT/ATATTATTTACT...AATAG|AAA | 0 | 1 | 32.468 |
12239986 | GT-AG | 0 | 0.0002855509133019 | 64 | rna-XM_027996609.1 2279627 | 5 | 1251026 | 1251089 | Aphis gossypii 80765 | AAT|GTAAGTTTAT...AATTTTTTAAAT/AATTTTTTAAAT...TTCAG|CAC | 0 | 1 | 45.292 |
12239987 | GT-AG | 0 | 1.000000099473604e-05 | 55 | rna-XM_027996609.1 2279627 | 6 | 1251264 | 1251318 | Aphis gossypii 80765 | CAT|GTGAGTAAAA...AAATTCTAAATA/CAAATTCTAAAT...TACAG|GAC | 0 | 1 | 54.708 |
12239988 | GT-AG | 0 | 0.0901688551680835 | 187 | rna-XM_027996609.1 2279627 | 7 | 1251649 | 1251835 | Aphis gossypii 80765 | AAA|GTATGTATTT...ATTCTCTTAATT/ATTCTCTTAATT...TCAAG|GTC | 0 | 1 | 72.565 |
12239989 | GT-AG | 0 | 0.3409855481693998 | 69 | rna-XM_027996609.1 2279627 | 8 | 1252004 | 1252072 | Aphis gossypii 80765 | AAA|GTATGTTTTA...TTATTTTTAATT/TTATTTTTAATT...TATAG|ATG | 0 | 1 | 81.656 |
12239990 | GT-AG | 0 | 1.000000099473604e-05 | 78 | rna-XM_027996609.1 2279627 | 9 | 1252169 | 1252246 | Aphis gossypii 80765 | AAA|GTTAGTGCAA...TTATTTTTATAA/GTTATTTTTATA...TTTAG|AAT | 0 | 1 | 86.851 |
12239991 | GT-AG | 0 | 1.000000099473604e-05 | 1104 | rna-XM_027996609.1 2279627 | 10 | 1252349 | 1253452 | Aphis gossypii 80765 | GAA|GTAAGTTATC...TAAGTATAAACT/TATAAACTAACA...CTTAG|GTA | 0 | 1 | 92.37 |
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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]);