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)

8 rows where transcript_id = 5774020

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
29499437 GT-AG 0 9.820030102259392e-05 80 rna-XM_020356988.2 5774020 1 3247851 3247930 Cajanus cajan 3821 AAG|GTCGCTCCTT...CTGCGCTTAGCT/GCTGCGCTTAGC...AACAG|GTG 0 1 10.758
29499438 GT-AG 0 0.0421559358267143 572 rna-XM_020356988.2 5774020 2 3247127 3247698 Cajanus cajan 3821 CAG|GTACCATTCC...TTTACCTTATTT/TTTTTTTTTACC...TGTAG|GAC 2 1 16.952
29499439 GT-AG 0 1.3424389359278e-05 659 rna-XM_020356988.2 5774020 3 3246345 3247003 Cajanus cajan 3821 CCG|GTAAGTTTTA...TGCCCCTCATAT/TGCAAATTCATC...TGTAG|GCT 2 1 21.964
29499440 GT-AG 0 0.0001658874040059 116 rna-XM_020356988.2 5774020 4 3246084 3246199 Cajanus cajan 3821 AGT|GTAAGTTGTG...AACATTTTATTT/ATTTTATTTATT...AACAG|GTT 0 1 27.873
29499441 GT-AG 0 0.0127032084769606 430 rna-XM_020356988.2 5774020 5 3245592 3246021 Cajanus cajan 3821 AAG|GTATTTTATG...TATTTCTAAATT/ATATTTCTAAAT...CCCAG|TCT 2 1 30.399
29499442 GT-AG 0 6.742416886665796e-05 92 rna-XM_020356988.2 5774020 6 3245283 3245374 Cajanus cajan 3821 CAG|GTATAGACAT...ATGTTCTTGATC/ATGTTCTTGATC...TCTAG|GGA 0 1 39.242
29499443 GT-AG 0 1.000000099473604e-05 407 rna-XM_020356988.2 5774020 7 3243967 3244373 Cajanus cajan 3821 AAG|GTAGGACTAC...CTCTCTTTCATT/CTCTCTTTCATT...AACAG|GTG 0 1 76.284
29499444 GT-AG 0 1.000000099473604e-05 261 rna-XM_020356988.2 5774020 8 3243405 3243665 Cajanus cajan 3821 TTG|GTAATGGATG...CACACCTTTTTT/AATCTTTTCAAA...TCCAG|ACA 1 1 88.549

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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]);