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)

7 rows where transcript_id = 29320853

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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
163356901 GT-AG 0 0.0026260366139899 122 rna-XM_021962999.1 29320853 1 371408 371529 Prunus avium 42229 CCA|GTATGTAGCC...ATCTCTTTCTCC/TATCTGCTGATC...GGCAG|ATA 1 1 37.175
163356902 GT-AG 0 1.000000099473604e-05 104 rna-XM_021962999.1 29320853 2 371575 371678 Prunus avium 42229 CAG|GTAAGGCTTC...GTTGCTTTTGCT/ATGGTATTCAAT...GCTAG|GTT 1 1 39.718
163356903 GT-AG 0 0.0029390540749222 100 rna-XM_021962999.1 29320853 3 371793 371892 Prunus avium 42229 ACG|GTATGCCCAA...TAAGCCTGATTT/TGCATACTAATT...AACAG|AAG 1 1 46.158
163356904 GT-AG 0 1.000000099473604e-05 171 rna-XM_021962999.1 29320853 4 372010 372180 Prunus avium 42229 CTG|GTGAGCATTT...GGGTTTTTAATT/TTTGTTCTCAAT...AACAG|GGA 1 1 52.768
163356905 GT-AG 0 0.0017371375175465 98 rna-XM_021962999.1 29320853 5 372400 372497 Prunus avium 42229 TTG|GTATGCATAT...CCAATTTAAATA/TGCAGACTAACC...AACAG|GGA 1 1 65.141
163356906 GT-AG 0 1.000000099473604e-05 124 rna-XM_021962999.1 29320853 6 372614 372737 Prunus avium 42229 AAG|GTCTGAGGCT...GACACTTTACAT/CATTTTCTGAGA...GGCAG|CCA 0 1 71.695
163356907 GT-AG 0 1.000000099473604e-05 91 rna-XM_021962999.1 29320853 7 372999 373089 Prunus avium 42229 ATG|GTCAGAAACC...ATGTTTCTACTT/ATGTTACTGATA...GTTAG|GCT 0 1 86.441

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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]);