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 = 18699340

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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
99735603 GT-AG 0 6.928150498155381e-05 1166 rna-XM_035683125.1 18699340 1 44595085 44596250 Juglans regia 51240 CAG|GTGCACCTTA...CTAATTTTAATG/TGATGACTAATT...ACTAG|AAT 2 1 4.794
99735604 GT-AG 0 1.000000099473604e-05 217 rna-XM_035683125.1 18699340 2 44594743 44594959 Juglans regia 51240 CTG|GTTAGTATAG...CATCCTTTGATA/CAGTTTCTAAAC...GGCAG|ATG 1 1 7.932
99735605 GT-AG 0 0.001811957887581 284 rna-XM_035683125.1 18699340 3 44592626 44592909 Juglans regia 51240 AGA|GTATGTGCTA...TCTGCCTAAATT/ATCTGCCTAAAT...TTCAG|GAT 1 1 53.941
99735606 GT-AG 0 1.000000099473604e-05 82 rna-XM_035683125.1 18699340 4 44591822 44591903 Juglans regia 51240 CAG|GTTAATACAT...ACATCCTTAAAC/CTGCTGCTGATT...TGCAG|GAT 0 1 72.063
99735607 GT-AG 0 0.0001004114009762 303 rna-XM_035683125.1 18699340 5 44591366 44591668 Juglans regia 51240 ATG|GTATGGAAGC...TGTTTCTTATCA/GTGTTTCTTATC...TGCAG|CAT 0 1 75.904
99735608 GT-AG 0 0.0002212772438161 141 rna-XM_035683125.1 18699340 6 44590888 44591028 Juglans regia 51240 CAG|GTACAATTTT...TTTGTTTTGAAT/TTTGTTCTGATT...TTCAG|CCA 1 1 84.362
99735609 GT-AG 0 0.0008983478250818 505 rna-XM_035683125.1 18699340 7 44590309 44590813 Juglans regia 51240 CAG|GTGTGCTTCT...GATCCTTTATTC/CAACATCTGATC...TGCAG|GAA 0 1 86.22

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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]);