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 = 17285670
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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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
92354124 | GT-AG | 0 | 0.0018488750756113 | 62 | rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1297878 17285670 | 1 | 1162766 | 1162827 | Hesseltinella vesiculosa 101127 | AAG|GTAACATTGG...CTTCTTTTAAAA/CTTCTTTTAAAA...AATAG|AAA | 0 | 1 | 3.532 |
92354125 | GT-AG | 0 | 2.7771120288574256e-05 | 72 | rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1297878 17285670 | 2 | 1162954 | 1163025 | Hesseltinella vesiculosa 101127 | AAT|GTAATTCAGA...TGTTACTTATCT/ATGTTACTTATC...TCTAG|AAA | 0 | 1 | 6.44 |
92354126 | GT-AG | 0 | 1.000000099473604e-05 | 59 | rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1297878 17285670 | 3 | 1163353 | 1163411 | Hesseltinella vesiculosa 101127 | ATG|GTAAGTGTCA...GTTTCGTTCTTC/TCCCAGCTGACG...ATTAG|CTC | 0 | 1 | 13.989 |
92354127 | GT-AG | 0 | 1.000000099473604e-05 | 71 | rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1297878 17285670 | 4 | 1163646 | 1163716 | Hesseltinella vesiculosa 101127 | AAG|GTAGGGGAGG...CTCTCCCTGTTC/AAGCGACTCACG...ACCAG|GTA | 0 | 1 | 19.391 |
92354128 | GT-AG | 0 | 1.000000099473604e-05 | 67 | rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1297878 17285670 | 5 | 1164149 | 1164215 | Hesseltinella vesiculosa 101127 | CAT|GTAAAAAAAA...TCATCACTGACC/TCATCACTGACC...ATAAG|ATC | 0 | 1 | 29.363 |
92354129 | GT-AG | 0 | 1.000000099473604e-05 | 65 | rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1297878 17285670 | 6 | 1166796 | 1166860 | Hesseltinella vesiculosa 101127 | GAC|GTAAGGAAAA...CATGTCTTGGCA/CTATTTTTCATG...TATAG|AAA | 0 | 1 | 88.92 |
92354130 | GT-AG | 0 | 1.000000099473604e-05 | 57 | rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1297878 17285670 | 7 | 1167015 | 1167071 | Hesseltinella vesiculosa 101127 | AGC|GTAAGTGATG...CGTTTCTTTTTT/CTATAGCTGAAC...TTTAG|ACG | 1 | 1 | 92.475 |
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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]);