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)
8 rows where transcript_id = 34480514
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Suggested facets: score, length, phase
id ▼ | dinucleotide_pair | is_minor | score | length | transcript_id | ordinal_index | start | end | taxonomy_id | scored_motifs | phase | in_cds | relative_position |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
193751076 | GT-AG | 0 | 1.000000099473604e-05 | 51 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA467679 34480514 | 1 | 4441290 | 4441340 | Syncephalastrum racemosum 13706 | AAG|GTAGGCCCTG...GTAGCATTCACA/GTAGCATTCACA...GTAAG|AAT | 0 | 1 | 1.891 |
193751077 | GT-AG | 0 | 1.000000099473604e-05 | 75 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA467679 34480514 | 2 | 4441522 | 4441596 | Syncephalastrum racemosum 13706 | AAC|GTAGGGGGAA...GTCTACTTAACA/AACTTCTTCATT...AACAG|AGC | 1 | 1 | 6.116 |
193751078 | GT-AG | 0 | 0.0456797562105461 | 50 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA467679 34480514 | 3 | 4441722 | 4441771 | Syncephalastrum racemosum 13706 | CCC|GTATGTATTT...TTTTCTTTCTCT/TTTTTGCTCATA...ATTAG|ACG | 0 | 1 | 9.034 |
193751079 | GT-AG | 0 | 1.000000099473604e-05 | 79 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA467679 34480514 | 4 | 4442333 | 4442411 | Syncephalastrum racemosum 13706 | AAA|GTAAGTGTGA...TTGACTTGGAAA/TGGAAACTCATT...ACTAG|GTA | 0 | 1 | 22.129 |
193751080 | GT-AG | 0 | 1.000000099473604e-05 | 64 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA467679 34480514 | 5 | 4442695 | 4442758 | Syncephalastrum racemosum 13706 | AAT|GTAAGTGATA...AAGACATTGACA/AAGACATTGACA...TCCAG|TGC | 1 | 1 | 28.735 |
193751081 | GT-AG | 0 | 1.130979083954476e-05 | 48 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA467679 34480514 | 6 | 4442911 | 4442958 | Syncephalastrum racemosum 13706 | TAT|GTAAGTACTT...CTCGTGTTGACG/CTCGTGTTGACG...ATTAG|GCA | 0 | 1 | 32.283 |
193751082 | GT-AG | 0 | 3.5309421541894954e-05 | 54 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA467679 34480514 | 7 | 4443335 | 4443388 | Syncephalastrum racemosum 13706 | TAG|GTAAGCTCAG...GCGTTCTTAGAA/AATTAATTGACT...TGTAG|CAT | 1 | 1 | 41.06 |
193751083 | GT-AG | 0 | 1.000000099473604e-05 | 50 | rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA467679 34480514 | 8 | 4443525 | 4443574 | Syncephalastrum racemosum 13706 | ACG|GTAAGACAAA...AGTGCGTTAAAC/GTTAAACTGAGT...TCTAG|TAT | 2 | 1 | 44.234 |
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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]);