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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)

9 rows where transcript_id = 34480506

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
193751005 GT-AG 0 0.0011101529850511 72 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA481844 34480506 1 1257251 1257322 Syncephalastrum racemosum 13706 CCT|GTAAAGTTTC...GTCTTTTTGACA/GTCATTTTCATC...GATAG|TTG 0 1 4.283
193751006 GT-AG 0 1.000000099473604e-05 89 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA481844 34480506 2 1256781 1256869 Syncephalastrum racemosum 13706 GAG|GTAGAGTATT...GTATTGCTAACA/GTATTGCTAACA...TCTAG|ATG 0 1 12.524
193751007 GT-AG 0 1.000000099473604e-05 99 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA481844 34480506 3 1256544 1256642 Syncephalastrum racemosum 13706 CAG|GTAAAGTTAA...CAGTACATATCA/AGGGCGCTGATC...TTTAG|CAT 0 1 15.509
193751008 GT-AG 0 4.4417868162093815e-05 44 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA481844 34480506 4 1256417 1256460 Syncephalastrum racemosum 13706 TCT|GTCATTCTCC...ATTTCGTTACTG/TATTTCGTTACT...CTGAG|ACA 2 1 17.305
193751009 GT-AG 0 1.000000099473604e-05 72 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA481844 34480506 5 1256296 1256367 Syncephalastrum racemosum 13706 AGG|GTAAATTGAG...AGAACGTTAACC/CGTTCTCTCATG...ATTAG|GGT 0 1 18.365
193751010 GT-AG 0 1.000000099473604e-05 62 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA481844 34480506 6 1256042 1256103 Syncephalastrum racemosum 13706 CAG|GTACGTCTTG...ACGCGCTTATAC/AACGCGCTTATA...CTTAG|GCA 0 1 22.518
193751011 GT-AG 0 1.000000099473604e-05 54 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA481844 34480506 7 1255637 1255690 Syncephalastrum racemosum 13706 GAG|GTAAGACAAA...GGTTGATTAATC/CTGTTGTTCATG...GGTAG|CCT 0 1 30.11
193751012 GT-AG 0 0.0009991327953816 53 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA481844 34480506 8 1255283 1255335 Syncephalastrum racemosum 13706 TTG|GTATGTGTCT...CATCTTTTATTG/TCATCTTTTATT...TGCAG|GCC 1 1 36.621
193751013 GT-AG 0 0.0001249577991318 46 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA481844 34480506 9 1255042 1255087 Syncephalastrum racemosum 13706 AAG|GTACGCATTC...GTCCTCTCACCT/TGTCCTCTCACC...TCCAG|GCG 1 1 40.839

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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 22.56ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)