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 = 22607867

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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
122606780 GT-AG 0 1.000000099473604e-05 23066 rna-XM_021197671.2 22607867 1 141358649 141381714 Mus pahari 10093 TCG|GTAAGCGAGC...ATTGACTTATTC/AATTGACTTATT...CCAAG|GCA 2 1 9.646
122606781 GT-AG 0 1.000000099473604e-05 32227 rna-XM_021197671.2 22607867 2 141326221 141358447 Mus pahari 10093 AAG|GTAAATGTTA...CTGTCTTTAAGT/GTAGTATTCAAT...TTTAG|GCT 2 1 12.835
122606782 GT-AG 0 0.0004439587013745 8511 rna-XM_021197671.2 22607867 3 141316292 141324802 Mus pahari 10093 CTG|GTAAGCTTAC...TCTCTTTTAATC/TCTCTTTTAATC...GAAAG|GAA 1 1 35.332
122606783 GT-AG 0 1.000000099473604e-05 8298 rna-XM_021197671.2 22607867 4 141307914 141316211 Mus pahari 10093 CAG|GTAAATGTTT...GGTGTTTTATAT/GGGTGTTTTATA...TTTAG|CTT 0 1 36.602
122606784 GT-AG 0 2.434038243886481e-05 13773 rna-XM_021197671.2 22607867 5 141294051 141307823 Mus pahari 10093 TCG|GTAGGTGTTT...ACTTCTTTAAAC/TTTAAACTTATG...TTTAG|GGC 0 1 38.03
122606785 GT-AG 0 1.000000099473604e-05 2646 rna-XM_021197671.2 22607867 6 141291289 141293934 Mus pahari 10093 CAG|GTAACAAGTT...ATTAATTTAACT/ATTAATTTAACT...TTCAG|GAG 2 1 39.87
122606786 GT-AG 0 8.166046683699693e-05 968 rna-XM_021197671.2 22607867 7 141290133 141291100 Mus pahari 10093 CAG|GTAGGCATTC...TTGTTTTTATAA/CTTGTTTTTATA...TTCAG|ATG 1 1 42.853

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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]);