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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)

8 rows where transcript_id = 34480564

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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
193751501 GT-AG 0 0.002647737520329 103 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA429488 34480564 1 1897996 1898098 Syncephalastrum racemosum 13706 GAA|GTACGCATAT...CTCTCTTTCACA/CTGCTGTTCATC...GCTAG|AAT 1 1 3.285
193751502 GT-AG 0 0.0587864213389513 86 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA429488 34480564 2 1898246 1898331 Syncephalastrum racemosum 13706 CAA|GTACTTTTCA...TATCTTTTAACA/TTGCTCCTCATC...TAAAG|ATG 1 1 7.974
193751503 GT-AG 0 1.308745339075303e-05 71 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA429488 34480564 3 1898537 1898607 Syncephalastrum racemosum 13706 AGG|GTAATTTGAT...ACGGCCCTAATC/ACGGCCCTAATC...GTCAG|TTT 2 1 14.514
193751504 GT-AG 0 1.000000099473604e-05 54 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA429488 34480564 4 1898793 1898846 Syncephalastrum racemosum 13706 AGC|GTAAGTAGGA...ACACCCTGAAAG/ATCATACTAAGC...CGTAG|GAA 1 1 20.415
193751505 GT-AG 0 0.0021739588719614 60 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA429488 34480564 5 1899389 1899448 Syncephalastrum racemosum 13706 CGC|GTATGTCTCA...AGTGCATGAATA/CGGATGCTAACG...TATAG|CGG 0 1 37.703
193751506 GT-AG 0 0.0307427722874656 56 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA429488 34480564 6 1899543 1899598 Syncephalastrum racemosum 13706 AAA|GTAACTTGCT...ATGTTGTTAACG/ATGTTGTTAACG...ATTAG|ACG 1 1 40.702
193751507 GT-AG 0 1.000000099473604e-05 49 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA429488 34480564 7 1899841 1899889 Syncephalastrum racemosum 13706 GGT|GTAAGTCAAG...GTGGCCGTATGA/ATGAGGCTGACA...TTTAG|AAC 0 1 48.421
193751508 GT-AG 0 0.0002044028843084 51 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA429488 34480564 8 1900115 1900165 Syncephalastrum racemosum 13706 CAG|GTATGTCTCG...AGCGCCTTGTCT/ACTTGGCTAACC...TGTAG|GAG 0 1 55.598

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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 29.061ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)