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 = 4621414

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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
24326520 GT-AG 0 1.000000099473604e-05 615 rna-XM_010229536.3 4621414 2 43749441 43750055 Brachypodium distachyon 15368 CTG|GTTTGTGCCC...TTCTGCTTGTCT/TCCATGCTAATC...AACAG|GAA 0 1 4.312
24326521 GT-AG 0 1.000000099473604e-05 1405 rna-XM_010229536.3 4621414 3 43750124 43751528 Brachypodium distachyon 15368 CAA|GTAAGTCGTG...GTGGTTTTGAAC/CTAGAACTCACA...TGCAG|AAA 2 1 5.334
24326522 GT-AG 0 9.273552525932486e-05 1823 rna-XM_010229536.3 4621414 4 43754578 43756400 Brachypodium distachyon 15368 GTG|GTATGTCAAT...CTGCTCATAATG/TCTTCTTTCAGT...ATCAG|GGT 0 1 51.142
24326523 GT-AG 0 1.000000099473604e-05 364 rna-XM_010229536.3 4621414 5 43758940 43759303 Brachypodium distachyon 15368 CCG|GTAAAACAAT...TTATTTTTACCC/TTTATTTTTACC...TGCAG|CGT 1 1 89.288
24326524 GT-AG 0 0.000341328572766 621 rna-XM_010229536.3 4621414 6 43759759 43760379 Brachypodium distachyon 15368 AAG|GTATGTCTAA...AGTTGTTTGACC/TTTGACCTAACT...CACAG|ATT 0 1 96.124
24326525 GT-AG 0 1.000000099473604e-05 101 rna-XM_010229536.3 4621414 7 43760497 43760597 Brachypodium distachyon 15368 AAG|GTATTGAAAT...GCATCCTCAAGC/TTTTGTGTCATT...TGCAG|AAA 0 1 97.882
24358204 GT-AG 0 1.2090268671352836e-05 188 rna-XM_010229536.3 4621414 1 43749122 43749309 Brachypodium distachyon 15368 GAG|GTATGAGCTT...TGGTTTTTATTT/CTGGTTTTTATT...TTCAG|GTT   0 3.32

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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]);