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)
11 rows where transcript_id = 3485063
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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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
17202804 | GT-AG | 0 | 1.000000099473604e-05 | 4113 | rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 | 1 | 16840 | 20952 | Armadillidium vulgare 13347 | TTG|GTAAGAATTT...TATACCATAATA/ATGGTGCTCATA...TTCAG|TTA | 0 | 1 | 1.73 |
17202805 | GT-AG | 0 | 1.000000099473604e-05 | 958 | rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 | 2 | 15810 | 16767 | Armadillidium vulgare 13347 | AAG|GTAAGTACAG...TATTGCTCAATA/ATATTGCTCAAT...GGCAG|GAC | 0 | 1 | 5.503 |
17202806 | GT-AG | 0 | 1.000000099473604e-05 | 559 | rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 | 3 | 15105 | 15663 | Armadillidium vulgare 13347 | TGG|GTGAGTTCAT...ATATATATATAT/TATATATATATA...TATAG|GGA | 2 | 1 | 13.155 |
17202807 | GT-AG | 0 | 0.0032379466962708 | 988 | rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 | 4 | 13912 | 14899 | Armadillidium vulgare 13347 | CAG|GTATGCATCT...TTAAACTTATTT/TATTTATTTATA...TGCAG|AGT | 0 | 1 | 23.899 |
17202808 | GT-AG | 0 | 1.000000099473604e-05 | 164 | rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 | 5 | 13530 | 13693 | Armadillidium vulgare 13347 | TGA|GTAAGATATC...TTATTTTTGCTT/TGGAAATTTATT...AAAAG|AAA | 2 | 1 | 35.325 |
17202809 | GT-AG | 0 | 1.000000099473604e-05 | 82 | rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 | 6 | 13279 | 13360 | Armadillidium vulgare 13347 | AAG|GTCTGGCAAT...TTATTATTAATA/TTATTATTAATA...TTCAG|ACA | 0 | 1 | 44.182 |
17202810 | GT-AG | 0 | 0.0001910734905194 | 96 | rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 | 7 | 13078 | 13173 | Armadillidium vulgare 13347 | TCT|GTAAGATTGA...TTACTTTTATTT/TTTACTTTTATT...GACAG|ATA | 0 | 1 | 49.686 |
17202811 | GT-AG | 0 | 5.198589403640919e-05 | 122 | rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 | 8 | 12785 | 12906 | Armadillidium vulgare 13347 | AAA|GTAAGTTATT...CAAATTTTAACA/ATGATTTTGACA...TGCAG|GAA | 0 | 1 | 58.648 |
17202812 | GT-AG | 0 | 1.000000099473604e-05 | 85 | rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 | 9 | 12567 | 12651 | Armadillidium vulgare 13347 | CTT|GTAAGTAAAG...ACCTTCTTATAT/AACCTTCTTATA...TTTAG|GGT | 1 | 1 | 65.618 |
17202813 | GT-AG | 0 | 1.009071501593712e-05 | 1400 | rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 | 10 | 10967 | 12366 | Armadillidium vulgare 13347 | ACA|GTAAGTAATG...ATATTTTTGAAG/GTTTTACTCACT...TACAG|GAA | 0 | 1 | 76.101 |
17202814 | GT-AG | 0 | 0.0005928526643897 | 699 | rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 | 11 | 10081 | 10779 | Armadillidium vulgare 13347 | CAT|GTAAGTTTGT...TTTTTCTTATTC/ATTTTTCTTATT...TAAAG|GGT | 1 | 1 | 85.901 |
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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]);