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 = 29402402

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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
163707994 GT-AG 0 0.0003367678544243 687 rna-XM_007225395.2 29402402 1 10641814 10642500 Prunus persica 3760 GCG|GTAAATTTTA...TCTGCATTGACT/CCTGATCTTATA...TGTAG|GCC 0 1 37.416
163707995 GT-AG 0 0.0108727629937581 659 rna-XM_007225395.2 29402402 2 10640417 10641075 Prunus persica 3760 GAG|GTACTCATCT...GTTGCTTTGATT/CTTTGATTTATT...GACAG|ATT 0 1 55.679
163707996 GT-AG 0 1.000000099473604e-05 327 rna-XM_007225395.2 29402402 3 10639595 10639921 Prunus persica 3760 AAG|GTTTGGTCAT...TTTTCTTTTGTC/CCAAATCTCACA...TGTAG|GAA 0 1 67.929
163707997 GT-AG 0 0.0002169208625781 135 rna-XM_007225395.2 29402402 4 10639368 10639502 Prunus persica 3760 TAG|GTAAGCCTGT...TTTTTCTTGAAG/AAATTTCTCAAT...AACAG|TTA 2 1 70.205
163707998 GT-AG 0 0.0005435631894243 90 rna-XM_007225395.2 29402402 5 10639190 10639279 Prunus persica 3760 CAG|GTATATGTTA...TGTTTCATACTA/CTATGTTTCATA...TTCAG|AGG 0 1 72.383
163707999 GT-AG 0 1.000000099473604e-05 88 rna-XM_007225395.2 29402402 6 10638987 10639074 Prunus persica 3760 AAG|GTTCAAGGTT...TGAGATTTGACT/ATGTTTGTCATT...TTTAG|TCA 1 1 75.229
163708000 GT-AG 0 1.000000099473604e-05 85 rna-XM_007225395.2 29402402 7 10638775 10638859 Prunus persica 3760 CAG|GTAGGTGTGT...TAGATTTTATAT/TTAGATTTTATA...CTCAG|GGG 2 1 78.372
163708001 GT-AG 0 0.002608985587948 290 rna-XM_007225395.2 29402402 8 10638310 10638599 Prunus persica 3760 AAG|GTATTTGCCT...GCTTTCTTAATT/GCTTTCTTAATT...ACCAG|GAT 0 1 82.702

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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]);