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 = 8322080

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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
44702263 GT-AG 0 0.0187511163568682 21794 rna-XM_006830822.1 8322080 1 4429272 4451065 Chrysochloris asiatica 185453 AAG|GTACCCACCT...AATGGTTTGATC/AATGGTTTGATC...TTCAG|GCT 0 1 16.923
44702264 GT-AG 0 1.000000099473604e-05 12369 rna-XM_006830822.1 8322080 2 4416744 4429112 Chrysochloris asiatica 185453 CAG|GTGAGCCATC...TATCATTTAAAT/TTGTATTTCACT...TTTAG|GTC 0 1 27.115
44702265 GT-AG 0 1.7675647661200504e-05 4232 rna-XM_006830822.1 8322080 3 4412332 4416563 Chrysochloris asiatica 185453 GAG|GTAAGCATTT...CATCCCTTGCAT/TTTAATATGAAA...TTCAG|GGA 0 1 38.654
44702266 GT-AG 0 0.0412326598365466 11426 rna-XM_006830822.1 8322080 4 4400716 4412141 Chrysochloris asiatica 185453 ACG|GTAACTTCCT...CGTCCTTTGACC/AAGGTGCTGAAT...TCCAG|GGA 1 1 50.833
44702267 GT-AG 0 0.0001256903765459 1058 rna-XM_006830822.1 8322080 5 4399501 4400558 Chrysochloris asiatica 185453 TAA|GTAATTATTT...GTTTCCTTGTAA/AGCTCTTTCATC...GACAG|CAA 2 1 60.897
44702268 GT-AG 0 6.003204708942909e-05 5782 rna-XM_006830822.1 8322080 6 4393577 4399358 Chrysochloris asiatica 185453 GTG|GTAAGTTTCA...TTTCTCTTACAG/TTTTCTCTTACA...TACAG|CAC 0 1 70.0
44702269 GT-AG 0 6.061429136745703e-05 49519 rna-XM_006830822.1 8322080 7 4343915 4393433 Chrysochloris asiatica 185453 AAG|GTAAGTTTGG...TTTGTTTTAACA/TTTGTTTTAACA...CACAG|GAC 2 1 79.167
44702270 GT-AG 0 1.000000099473604e-05 21820 rna-XM_006830822.1 8322080 8 4321887 4343706 Chrysochloris asiatica 185453 CAG|GTGAGTATGT...TAAATATAAGAA/CTAAATATAAGA...TTCAG|ACT 0 1 92.5

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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]);