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)

6 rows where transcript_id = 18928190

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Suggested facets: dinucleotide_pair, score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
100970795 GT-AG 0 1.000000099473604e-05 11081 rna-XM_033166446.1 18928190 2 107386184 107397264 Lacerta agilis 80427 AAT|GTAAGTGAGC...GCATCCTAATCC/TGCATCCTAATC...ACCAG|GCT 0 1 1.687
100970796 GT-AG 0 1.000000099473604e-05 19853 rna-XM_033166446.1 18928190 3 107397391 107417243 Lacerta agilis 80427 CAG|GTAAGAAGTA...TGTACCGTAAAC/TTTCTATTCATC...TTCAG|AAG 0 1 2.938
100970797 GT-AG 0 9.621769944876332e-05 1776 rna-XM_033166446.1 18928190 4 107417358 107419133 Lacerta agilis 80427 AAG|GTAACTGTAT...GTTAATTTAATT/ATTTGGTTAATT...TGCAG|GTT 0 1 4.069
100970798 GT-AG 0 1.000000099473604e-05 1729 rna-XM_033166446.1 18928190 5 107419207 107420935 Lacerta agilis 80427 CAG|GTAGGAGAAA...ATTTTCTTTCTG/TTCATTTTCATT...TGCAG|TGG 1 1 4.794
100970799 GT-AG 0 1.000000099473604e-05 1433 rna-XM_033166446.1 18928190 6 107421061 107422493 Lacerta agilis 80427 AAG|GTTGGTGGTG...GGTTTTTTAAAA/AAACAACTAATT...TAAAG|ATT 0 1 6.034
100986565 AA-TT 0 9.125199567292236e-05 22063 rna-XM_033166446.1 18928190 1 107363958 107386020 Lacerta agilis 80427 GAA|AAGGTAAGTG...GTGTTCTTGTCT/CTTTTCTTCATA...GTTTT|AGG   0 1.121

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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]);