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 = 4072594

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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
21102182 GT-AG 0 0.0157712882342249 156 rna-gnl|WGS:MCFE|K493DRAFT_mRNA327617 4072594 1 109196 109351 Basidiobolus meristosporus 423460 ATG|GTAACCACCT...GGTCCTTTATTT/CATGTACTTACG...CTCAG|GTC 0 1 9.061
21102183 GT-AG 0 1.000000099473604e-05 80 rna-gnl|WGS:MCFE|K493DRAFT_mRNA327617 4072594 2 109499 109578 Basidiobolus meristosporus 423460 ATG|GTACGGTAGT...CGCGTCTGACCA/GCGCGTCTGACC...TATAG|GGG 0 1 24.919
21102184 GT-AG 0 9.674128657796862e-05 96 rna-gnl|WGS:MCFE|K493DRAFT_mRNA327617 4072594 3 109721 109816 Basidiobolus meristosporus 423460 ATG|GTAGGCTCAC...CATCTCTTCTCC/AACCAACTCATC...ATCAG|ACG 1 1 40.237
21102185 GT-AG 0 0.0022485596370858 61 rna-gnl|WGS:MCFE|K493DRAFT_mRNA327617 4072594 4 109897 109957 Basidiobolus meristosporus 423460 GCG|GTAACTTCAC...TACTTCTGCACC/CCCACACTAAAC...CTTAG|ATC 0 1 48.867
21102186 GT-AG 0 1.000000099473604e-05 56 rna-gnl|WGS:MCFE|K493DRAFT_mRNA327617 4072594 5 110076 110131 Basidiobolus meristosporus 423460 GTG|GTAAGTACAG...GCAACTTTCTCA/AACTTTCTCACG...CTTAG|ATC 1 1 61.597
21102187 GT-AG 0 1.000000099473604e-05 62 rna-gnl|WGS:MCFE|K493DRAFT_mRNA327617 4072594 6 110224 110285 Basidiobolus meristosporus 423460 GAG|GTAAGTGAAC...CATGTCGAAACT/TCGAAACTGAAC...GACAG|TTC 0 1 71.521

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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]);