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 = 32499313

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
181746012 GT-AG 0 0.0186673000342277 46 rna-gnl|WGS:JALJEE|g11375.t1 32499313 1 28118 28163 Seison nebaliae 104778 AAG|GTTTTCTTTA...ATTTGCTTAAAA/AAGTGTCTAATG...TCAAG|ATT 1 1 9.853
181746013 GT-AG 0 0.000375543978022 51 rna-gnl|WGS:JALJEE|g11375.t1 32499313 2 27957 28007 Seison nebaliae 104778 TCC|GTTTAAATTC...CATTTCTTATGA/CCATTTCTTATG...GATAG|TTG 0 1 21.384
181746014 GT-AG 0 1.000000099473604e-05 61 rna-gnl|WGS:JALJEE|g11375.t1 32499313 3 27798 27858 Seison nebaliae 104778 AAA|GTTATTTGAT...AAAATTTTAAAT/AAAATTTTAAAT...TTTAG|TTC 2 1 31.656
181746015 GT-AG 0 0.0152699363345094 47 rna-gnl|WGS:JALJEE|g11375.t1 32499313 4 27624 27670 Seison nebaliae 104778 AAA|GTTCCTATTT...TCTTCTTCAAAT/AATGATCTCACG...GAAAG|ATA 0 1 44.969
181746016 GT-AG 0 0.0001143748801201 47 rna-gnl|WGS:JALJEE|g11375.t1 32499313 5 27479 27525 Seison nebaliae 104778 ATT|GTTCGATTAC...TTTTCCGTAATA/TTCCATTTCAAT...ATTAG|ATA 2 1 55.241
181746017 GT-AG 0 0.0341010852536039 42 rna-gnl|WGS:JALJEE|g11375.t1 32499313 6 27216 27257 Seison nebaliae 104778 ATA|GTTTACTCTT...ATCGTATTAACA/CTGATTTTCAAT...TTTAG|AAA 1 1 78.407

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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]);