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 = 38189516

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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
210821557 GT-AG 0 0.0008729099233681 2410 rna-XM_025996170.1 38189516 1 20039187 20041596 Vulpes vulpes 9627 GAG|GTACCACTGG...CAGGCCTCACCC/TCAGGCCTCACC...CCCAG|CAA 0 1 5.166
210821558 GT-AG 0 1.000000099473604e-05 21029 rna-XM_025996170.1 38189516 2 20042064 20063092 Vulpes vulpes 9627 GAG|GTGAGCCTGC...GAGCCCTCAACT/AGAGCCCTCAAC...CGCAG|CAT 2 1 23.039
210821559 GT-AG 0 1.000000099473604e-05 5975 rna-XM_025996170.1 38189516 4 20065432 20071406 Vulpes vulpes 9627 CAG|GTGAGAGGGG...GGGTTCTCATTT/GGGGTTCTCATT...TTTAG|ACC 0 1 46.613
210821560 GT-AG 0 1.000000099473604e-05 365 rna-XM_025996170.1 38189516 5 20071554 20071918 Vulpes vulpes 9627 GAG|GTGAGCTGCC...TGGCCTCTGACT/TGGCCTCTGACT...TGTAG|GAG 0 1 52.239
210821561 GT-AG 0 1.000000099473604e-05 1136 rna-XM_025996170.1 38189516 6 20072175 20073310 Vulpes vulpes 9627 CAG|GTAGGGAGGC...CAGGGCTTAATG/CAGGGCTTAATG...TTCAG|AGG 1 1 62.036
210821562 GT-AG 0 1.000000099473604e-05 7776 rna-XM_025996170.1 38189516 7 20073364 20081139 Vulpes vulpes 9627 TCG|GTGAGTGGTC...GGACCCCTGACC/GGACCCCTGACC...TGCAG|TCC 0 1 64.064
210821563 GT-AG 0 1.000000099473604e-05 1095 rna-XM_025996170.1 38189516 8 20081291 20082385 Vulpes vulpes 9627 AAA|GTGGGTTCTC...CTGCCCTTCTCT/TGGGGCCTCACC...CCCAG|CCC 1 1 69.843

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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]);