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 = 38062751

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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
210095719 GT-AG 0 1.000000099473604e-05 70 rna-XM_034838636.1 38062751 1 20339152 20339221 Vitis riparia 96939 CAG|GTGGTGTGCT...TAGTTTTTAAAA/TAGTTTTTAAAA...TTCAG|GTG 0 1 1.608
210095720 GT-AG 0 3.0006098028235327e-05 86 rna-XM_034838636.1 38062751 2 20338517 20338602 Vitis riparia 96939 ACG|GTAAGCATTA...TTTGCTTTTGTA/TGGCATCTCAAA...TACAG|GTT 0 1 13.376
210095721 GT-AG 0 1.000000099473604e-05 156 rna-XM_034838636.1 38062751 3 20337185 20337340 Vitis riparia 96939 AAT|GTAAGTCAAT...GTTTTCTAAGTT/TAAGTTTTCAGT...AAAAG|ATT 0 1 38.585
210095722 GT-AG 0 7.277185241028014e-05 753 rna-XM_034838636.1 38062751 4 20336104 20336856 Vitis riparia 96939 AAG|GTATGGCATT...ATATTTTTAATT/ATATTTTTAATT...TCTAG|CTT 1 1 45.616
210095723 GT-AG 0 1.000000099473604e-05 91 rna-XM_034838636.1 38062751 5 20335754 20335844 Vitis riparia 96939 TAG|GTAAGGCTTT...ATCTTTTTACAT/AATGACTTCATT...TCCAG|ACA 2 1 51.168
210095724 GT-AG 0 1.000000099473604e-05 152 rna-XM_034838636.1 38062751 6 20335385 20335536 Vitis riparia 96939 AAG|GTGTGTAGGA...GTTTTCTTATCT/TGTTTTCTTATC...CCTAG|GTT 0 1 55.82
210095725 GT-AG 0 1.000000099473604e-05 117 rna-XM_034838636.1 38062751 7 20334912 20335028 Vitis riparia 96939 GGG|GTAAGATTAT...TGAATTTTAACC/TTTTTTTTCACC...CACAG|GGA 2 1 63.451
210095726 GT-AG 0 1.000000099473604e-05 243 rna-XM_034838636.1 38062751 8 20334132 20334374 Vitis riparia 96939 AAG|GTGAGGGAAA...TTTCCTTGGACT/CTTTTTCTAACT...TGTAG|CTT 2 1 74.962

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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]);