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 = 10007562

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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
55033460 GT-AG 0 3.3828632026283545e-05 558 rna-XM_008446436.2 10007562 1 6499576 6500133 Cucumis melo 3656 CAG|GTACTGCTTC...GTCTTCTTAAGT/TTTGAATTCACA...ATCAG|TTC 2 1 1.665
55033461 GT-AG 0 1.000000099473604e-05 921 rna-XM_008446436.2 10007562 2 6500384 6501304 Cucumis melo 3656 AAG|GTCATAATTT...TCTTTCTTGATA/TTTTTTTTGAAT...TGCAG|GTA 0 1 9.099
55033462 GT-AG 0 1.000000099473604e-05 236 rna-XM_008446436.2 10007562 3 6501429 6501664 Cucumis melo 3656 AAG|GTTAGATTCA...TTCTCCTTTTTG/TGACTGCTGATA...TGAAG|TTC 1 1 12.786
55033463 GT-AG 0 0.0124325039409344 108 rna-XM_008446436.2 10007562 4 6502009 6502116 Cucumis melo 3656 CAA|GTAGGCTTTT...TGTTTTTTATCA/TTGTTTTTTATC...TCCAG|GCA 0 1 23.015
55033464 GT-AG 0 0.4801571406203215 123 rna-XM_008446436.2 10007562 5 6503807 6503929 Cucumis melo 3656 TGG|GTATATTTTT...CTTTTCTTAGTG/TCTTTTCTTAGT...TTCAG|TGC 1 1 73.268
55033465 GT-AG 0 1.000000099473604e-05 1553 rna-XM_008446436.2 10007562 6 6504172 6505724 Cucumis melo 3656 AAG|GTTGGTTTCC...AATACATTATCC/TGTTAAATCACT...TGCAG|GAT 0 1 80.464
55036607 GT-AG 0 0.0208572340472545 74 rna-XM_008446436.2 10007562 7 6505812 6505885 Cucumis melo 3656 AAA|GTACTCACAA...CAACTCTTAACT/CAACTCTTAACT...GTCAG|CAA   0 83.051

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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]);