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)

6 rows where transcript_id = 18699332

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Suggested facets: dinucleotide_pair, score, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
99735499 GT-AG 0 5.301065742071403e-05 311 rna-XM_018972061.2 18699332 2 10667715 10668025 Juglans regia 51240 AAG|GTAACTGCAA...ACTTCCATGATC/TTGGTATTGACT...AACAG|GTA 0 1 4.747
99735500 GT-AG 0 1.000000099473604e-05 93 rna-XM_018972061.2 18699332 3 10671257 10671349 Juglans regia 51240 CAG|GTTTGGTGCC...TGTCCCATGATG/ACATATTTGATT...TGCAG|ATA 0 1 80.682
99735501 GT-AG 0 0.0009788357301758 142 rna-XM_018972061.2 18699332 4 10671593 10671734 Juglans regia 51240 GAG|GTATTCCAGA...ATGTTTCTGACT/ATGTTTCTGACT...TGTAG|GTG 0 1 86.392
99735502 GT-AG 0 1.000000099473604e-05 325 rna-XM_018972061.2 18699332 5 10671894 10672218 Juglans regia 51240 CAG|GTACTAGCCA...TGTTCCTGAACT/TTGTTCCTGAAC...ATCAG|AAC 0 1 90.129
99735503 GT-AG 0 1.000000099473604e-05 303 rna-XM_018972061.2 18699332 6 10672378 10672680 Juglans regia 51240 AAG|GTTATTTTCT...GTTTCTTCAGTT/AGTTTCTTCAGT...TACAG|GGA 0 1 93.866
99746266 GC-AG 0 1.000000099473604e-05 3911 rna-XM_018972061.2 18699332 1 10663683 10667593 Juglans regia 51240 CAG|GCAAGCCTAT...GCCTGCTTAATC/CTTAATCTCATT...CACAG|AGA   0 2.703

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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]);