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)
9 rows where transcript_id = 6831579
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Suggested facets: dinucleotide_pair, score, phase
id ▼ | dinucleotide_pair | is_minor | score | length | transcript_id | ordinal_index | start | end | taxonomy_id | scored_motifs | phase | in_cds | relative_position |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
35540510 | GT-AG | 0 | 0.0096944343393812 | 1559 | rna-XM_009696380.1 6831579 | 1 | 1234 | 2792 | Cariama cristata 54380 | ATG|GTAACTTTTC...ATGACTTTCTTT/ATGCATATGACT...CCTAG|GGA | 2 | 1 | 7.086 |
35540511 | GT-AG | 0 | 1.208577888394688e-05 | 3743 | rna-XM_009696380.1 6831579 | 2 | 2866 | 6608 | Cariama cristata 54380 | AAG|GTAAGTTTAC...CATATTTTGAAC/TGCTGTTTCATA...TGCAG|ATT | 0 | 1 | 12.364 |
35540512 | GT-AG | 0 | 1.000000099473604e-05 | 10784 | rna-XM_009696380.1 6831579 | 3 | 6721 | 17504 | Cariama cristata 54380 | CAG|GTTCGGACAA...TCCTCTTTGAAT/TTTCTTCTAAAA...CTTAG|ACC | 1 | 1 | 20.463 |
35540513 | GT-AG | 0 | 0.0376183120139481 | 768 | rna-XM_009696380.1 6831579 | 4 | 17643 | 18410 | Cariama cristata 54380 | AGG|GTATGTTTTC...GTTTTCTTCTTT/TAGCTTTCTATT...TACAG|ACT | 1 | 1 | 30.441 |
35540514 | GC-AG | 0 | 0.0003574199286272 | 708 | rna-XM_009696380.1 6831579 | 5 | 18602 | 19309 | Cariama cristata 54380 | AGT|GCTCACCAAG...GATATTTTAACT/TTTTAACTCATT...CAAAG|CAT | 0 | 1 | 44.252 |
35540515 | GT-AG | 0 | 0.0163959239050862 | 2027 | rna-XM_009696380.1 6831579 | 6 | 19445 | 21471 | Cariama cristata 54380 | GAG|GTATTCTAGT...CTAATGTTAATT/CTAATGTTAATT...TGTAG|CCC | 0 | 1 | 54.013 |
35540516 | GT-AG | 0 | 1.000000099473604e-05 | 1350 | rna-XM_009696380.1 6831579 | 7 | 21749 | 23098 | Cariama cristata 54380 | GAG|GTACTGTGCA...TGTTTTTTCTCC/CTGTGGTTTATG...AACAG|GGC | 1 | 1 | 74.042 |
35540517 | GT-AG | 0 | 0.0005923660068587 | 1579 | rna-XM_009696380.1 6831579 | 8 | 23299 | 24877 | Cariama cristata 54380 | CAG|GTATTATTCA...TTATACTTACCA/TTTATACTTACC...TAAAG|GCA | 0 | 1 | 88.503 |
35540518 | GT-AG | 0 | 1.000000099473604e-05 | 301 | rna-XM_009696380.1 6831579 | 9 | 24923 | 25223 | Cariama cristata 54380 | TCT|GTCAAGGTAA...GAATTTTTTTCT/AGATTGCTGACT...CTTAG|AAA | 0 | 1 | 91.757 |
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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]);