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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)

11 rows where transcript_id = 34480558

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Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
193751443 GT-AG 0 0.0004119225992592 50 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 1 4358713 4358762 Syncephalastrum racemosum 13706 CAG|GTATGCAAAC...CGTTACTTAAAT/CCGTTACTTAAA...AACAG|GTT 0 1 10.432
193751444 GT-AG 0 1.000000099473604e-05 70 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 2 4358388 4358457 Syncephalastrum racemosum 13706 AAG|GTAAAAGGAA...TCATTTTTGATT/TCATTTTTGATT...GCCAG|GCC 0 1 18.421
193751445 GT-AG 0 1.000000099473604e-05 56 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 3 4358127 4358182 Syncephalastrum racemosum 13706 CGG|GTAAGTTCCT...AGATACTAATCG/AAGATACTAATC...TATAG|AGC 1 1 24.843
193751446 GT-AG 0 1.9449192053720908e-05 60 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 4 4357578 4357637 Syncephalastrum racemosum 13706 ATG|GTAAGTCTGG...TTGATTTTAATT/TTGATTTTAATT...CTCAG|ATA 1 1 40.163
193751447 GT-AG 0 1.000000099473604e-05 57 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 5 4357102 4357158 Syncephalastrum racemosum 13706 AAG|GTAAAAACAG...TTGGTATTGACA/TTGGTATTGACA...TATAG|GGC 0 1 53.289
193751448 GT-AG 0 8.582771278160254e-05 65 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 6 4356886 4356950 Syncephalastrum racemosum 13706 GCC|GTAAGTTAAA...ACACTCATGACT/ATGACACTCATG...GTTAG|AGC 1 1 58.02
193751449 GT-AG 0 1.000000099473604e-05 62 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 7 4356435 4356496 Syncephalastrum racemosum 13706 ATT|GTAAGTGCAA...CTGTTTGTAACA/CTGTTTGTAACA...TTTAG|ACT 0 1 70.207
193751450 GT-AG 0 1.000000099473604e-05 56 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 8 4356178 4356233 Syncephalastrum racemosum 13706 AAG|GTAAGGAAAA...AAGCTCATGTTT/CGTAAGCTCATG...AAAAG|AAC 0 1 76.504
193751451 GT-AG 0 1.000000099473604e-05 52 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 9 4355932 4355983 Syncephalastrum racemosum 13706 AAA|GTAAGTGCAA...GTCTCCTTACAT/ATGATACTGATC...CATAG|ACT 2 1 82.581
193751452 GT-AG 0 1.000000099473604e-05 49 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 10 4355705 4355753 Syncephalastrum racemosum 13706 AAG|GTAAGCCCAT...CGGGTTTTAACA/CGGGTTTTAACA...CACAG|GAG 0 1 88.158
193751453 GT-AG 0 1.000000099473604e-05 64 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA65121 34480558 11 4355316 4355379 Syncephalastrum racemosum 13706 AAG|GTAAGAAAGA...CATGTCCTGACA/ATCTGATTCATT...TGTAG|GTA 1 1 98.34

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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]);
Powered by Datasette · Queries took 24.256ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)