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 = 2107317
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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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
11507063 | GT-AG | 0 | 1.000000099473604e-05 | 20678 | rna-XM_009870073.1 2107317 | 1 | 114132 | 134809 | Apaloderma vittatum 57397 | CAA|GTAAGTACCA...CTGCCCTTTGTG/GCTCTGCTAACC...TGCAG|GTG | 2 | 1 | 14.58 |
11507064 | GT-AG | 0 | 1.000000099473604e-05 | 8126 | rna-XM_009870073.1 2107317 | 2 | 105839 | 113964 | Apaloderma vittatum 57397 | AAG|GTTAGCAGCG...TGCACCTTTTCA/CACCTTTTCACT...TCTAG|AGG | 1 | 1 | 27.813 |
11507065 | GT-AG | 0 | 1.000000099473604e-05 | 1988 | rna-XM_009870073.1 2107317 | 3 | 103676 | 105663 | Apaloderma vittatum 57397 | CTG|GTAGGTGCTC...TTTTTTTTTTCC/TTTTTCCCCAAT...TTCAG|GGC | 2 | 1 | 41.68 |
11507066 | GT-AG | 0 | 0.0002634592555748 | 40001 | rna-XM_009870073.1 2107317 | 4 | 63477 | 103477 | Apaloderma vittatum 57397 | CAG|GTATGTCACA...TTTTCCTTGTTT/ATGTCAGTAATT...TACAG|GAC | 2 | 1 | 57.369 |
11507067 | GT-AG | 0 | 1.000000099473604e-05 | 51911 | rna-XM_009870073.1 2107317 | 5 | 11448 | 63358 | Apaloderma vittatum 57397 | AAG|GTTTGTGACA...TATATGTGAGCT/TTATATGTGAGC...TGCAG|GTC | 0 | 1 | 66.719 |
11507068 | GT-AG | 0 | 1.000000099473604e-05 | 3400 | rna-XM_009870073.1 2107317 | 6 | 7862 | 11261 | Apaloderma vittatum 57397 | GAG|GTACGACCAT...GTTTCTTTATTT/TGTTTCTTTATT...TTCAG|AAT | 0 | 1 | 81.458 |
11507069 | GT-AG | 0 | 1.000000099473604e-05 | 1220 | rna-XM_009870073.1 2107317 | 7 | 6504 | 7723 | Apaloderma vittatum 57397 | GAG|GTAATTAAGA...CATTTTTTATTT/GCATTTTTTATT...TACAG|CTT | 0 | 1 | 92.393 |
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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]);