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)
4 rows where transcript_id = 9114855
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Suggested facets: phase
id ▼ | dinucleotide_pair | is_minor | score | length | transcript_id | ordinal_index | start | end | taxonomy_id | scored_motifs | phase | in_cds | relative_position |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
49389310 | GT-AG | 0 | 1.000000099473604e-05 | 387 | rna-gnl|WGS:VYZG|COLPIC_R05532_mrna 9114855 | 1 | 2648042 | 2648428 | Columbina picui 115618 | AGT|GTAAGTACAA...ATTTTCTTTTTC/GTGGATTTCAGT...TGCAG|ATC | 1 | 1 | 28.591 |
49389311 | GT-AG | 0 | 1.000000099473604e-05 | 2588 | rna-gnl|WGS:VYZG|COLPIC_R05532_mrna 9114855 | 2 | 2645395 | 2647982 | Columbina picui 115618 | ATA|GTAAGTGAAC...AGTTCCTTTTCT/CCTTGTGTCACT...TGCAG|CCA | 0 | 1 | 36.585 |
49389312 | GT-AG | 0 | 1.000000099473604e-05 | 1185 | rna-gnl|WGS:VYZG|COLPIC_R05532_mrna 9114855 | 3 | 2644079 | 2645263 | Columbina picui 115618 | CAG|GTGTATATGC...TAAAACTTAGTA/TAAGCATTTATA...TGTAG|ATA | 2 | 1 | 54.336 |
49389313 | GT-AG | 0 | 1.000000099473604e-05 | 1252 | rna-gnl|WGS:VYZG|COLPIC_R05532_mrna 9114855 | 4 | 2642674 | 2643925 | Columbina picui 115618 | CAG|GTAAGGTTTT...GTATATTTAATG/TGTATATTTAAT...AACAG|CCT | 2 | 1 | 75.068 |
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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]);