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)
5 rows where transcript_id = 9114819
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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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
49388950 | GT-AG | 0 | 3.4881744603156416e-05 | 4869 | rna-gnl|WGS:VYZG|COLPIC_R05531_mrna 9114819 | 1 | 3844167 | 3849035 | Columbina picui 115618 | CAG|GTAGGCTTTG...TGTTGCATACTA/ATGTTGCATACT...TCCAG|GTC | 0 | 1 | 1.772 |
49388951 | GT-AG | 0 | 1.000000099473604e-05 | 20067 | rna-gnl|WGS:VYZG|COLPIC_R05531_mrna 9114819 | 2 | 3823983 | 3844049 | Columbina picui 115618 | GTT|GTGGGTATAA...CTTTCCTTCAAA/AAAAAATTAATC...CACAG|GGC | 0 | 1 | 4.076 |
49388952 | GT-AG | 0 | 0.0002330750645042 | 1659 | rna-gnl|WGS:VYZG|COLPIC_R05531_mrna 9114819 | 3 | 3822120 | 3823778 | Columbina picui 115618 | ACT|GTAAGTTAGA...TACTATTTAACT/TACTATTTAACT...AAAAG|ATG | 0 | 1 | 8.092 |
49388953 | GT-AG | 0 | 1.000000099473604e-05 | 310 | rna-gnl|WGS:VYZG|COLPIC_R05531_mrna 9114819 | 4 | 3821665 | 3821974 | Columbina picui 115618 | CTG|GTAAAGTTCA...GTTCTCTTTTCA/TCTCTTTTCATC...CTCAG|CTA | 1 | 1 | 10.947 |
49388954 | GT-AG | 0 | 1.000000099473604e-05 | 1556 | rna-gnl|WGS:VYZG|COLPIC_R05531_mrna 9114819 | 5 | 3819519 | 3821074 | Columbina picui 115618 | AAG|GTAAATAAAT...TACACATTAACT/CTGTGCTTCATT...TCTAG|GCC | 0 | 1 | 22.563 |
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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]);