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 = 20429338

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Suggested facets: 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
109623022 GT-AG 0 0.0050105448722645 747 rna-XM_042653213.1 20429338 2 34054876 34055622 Macadamia integrifolia 60698 GAG|GTACACCCTG...AAAACCTTATTT/GAAAACCTTATT...TGCAG|CTT 1 1 23.142
109623023 GT-AG 0 1.000000099473604e-05 392 rna-XM_042653213.1 20429338 3 34053138 34053529 Macadamia integrifolia 60698 AAT|GTAAGTCCTC...GAAAACTTAAAT/TAAATTTTCATT...TGCAG|AAA 0 1 63.967
109623024 GT-AG 0 1.000000099473604e-05 504 rna-XM_042653213.1 20429338 4 34052356 34052859 Macadamia integrifolia 60698 TTG|GTTAGTATTA...TAATCCTTGATT/TGATTATTCATC...TGCAG|GTT 2 1 72.399
109623025 GT-AG 0 1.000000099473604e-05 124 rna-XM_042653213.1 20429338 5 34052200 34052323 Macadamia integrifolia 60698 ACA|GTAAGTAGAT...TATCCTTTGGCT/CTCAAGTTGATA...TGCAG|GGG 1 1 73.37
109623026 GT-AG 0 9.133083356430708e-05 1415 rna-XM_042653213.1 20429338 6 34050375 34051789 Macadamia integrifolia 60698 TTT|GTAAGTGTCT...TTGCTTTTATCC/ATTTCTCTCAAT...TACAG|GCA 0 1 85.805
109627143 GT-AG 0 2.556412561240565e-05 558 rna-XM_042653213.1 20429338 1 34056006 34056563 Macadamia integrifolia 60698 CGG|GTAAGTCTTC...TTTTCCTTGGTT/TATCTGCAAATT...TGCAG|TAG   0 15.014

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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]);