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 = 7027233

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Suggested facets: dinucleotide_pair, 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
36594327 GT-AG 0 0.0005373624144658 64667 rna-XM_033051985.1 7027233 2 68199767 68264433 Catharus ustulatus 91951 GAG|GTATGTAGCT...TGTATTTTAATA/TGTATTTTAATA...TGCAG|ACA 1 1 6.534
36594328 GT-AG 0 1.000000099473604e-05 20059 rna-XM_033051985.1 7027233 3 68179654 68199712 Catharus ustulatus 91951 GAG|GTAATAACAT...TCTTTTTTATTC/TTCTTTTTTATT...AACAG|AAA 1 1 7.16
36594329 GT-AG 0 3.7976511957685166e-05 6135 rna-XM_033051985.1 7027233 4 68167580 68173714 Catharus ustulatus 91951 AAG|GTACTTAAGC...CTAATTTTAATG/GCATATCTCATT...TTCAG|CGA 0 1 76.082
36594330 GC-AG 0 1.000000099473604e-05 1351 rna-XM_033051985.1 7027233 5 68166095 68167445 Catharus ustulatus 91951 AGG|GCAAGTATTG...TTTGCCTTACTC/GTTTGCCTTACT...ACTAG|GTA 2 1 77.637
36594331 GT-AG 0 1.000000099473604e-05 1995 rna-XM_033051985.1 7027233 6 68163924 68165918 Catharus ustulatus 91951 AAG|GTAGGGCTTC...TAATTTTTATTT/TGTGTACTCACA...TTAAG|GAA 1 1 79.68
36594332 GT-AG 0 1.000000099473604e-05 11970 rna-XM_033051985.1 7027233 7 68151849 68163818 Catharus ustulatus 91951 TTG|GTAAGAAATT...ATTGTCTTAATT/TTAATTTTTACT...TGCAG|GTG 1 1 80.898
36594333 GT-AG 0 1.000000099473604e-05 2805 rna-XM_033051985.1 7027233 8 68148526 68151330 Catharus ustulatus 91951 AAG|GTAGGAGTGT...GCCACATTAACA/GCCACATTAACA...CCCAG|AGC 0 1 86.91
36607261 GT-AG 0 1.000000099473604e-05 4223 rna-XM_033051985.1 7027233 1 68264581 68268803 Catharus ustulatus 91951 GCG|GTGAGTTTCC...TTTTTCTTATTG/GTTTTTCTTATT...TTTAG|CAT   0 6.069

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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]);