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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 = 34480555

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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
193751420 GT-AG 0 0.0018466476127841 64 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA450541 34480555 1 2879757 2879820 Syncephalastrum racemosum 13706 GCG|GTATATACTA...CCCGACTTATTA/CCCCGACTTATT...TTTAG|ATG 0 1 28.784
193751421 GT-AG 0 0.0003127625203727 49 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA450541 34480555 2 2879908 2879956 Syncephalastrum racemosum 13706 AAT|GTAGGCACTA...AGATCCATAATC/GTGAAACTAATG...TCCAG|GTC 0 1 31.476
193751422 GT-AG 0 1.000000099473604e-05 53 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA450541 34480555 3 2880110 2880162 Syncephalastrum racemosum 13706 GAG|GTAAGAATCG...ATTCACTCGACT/TACGTATTCACT...TCCAG|GAT 0 1 36.212
193751423 GT-AG 0 0.0028060163085471 53 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA450541 34480555 4 2880296 2880348 Syncephalastrum racemosum 13706 ATG|GTACGCTATT...TATATCTTAAGC/TAAGCATTCATA...CATAG|TGC 1 1 40.328
193751424 GT-AG 0 1.000000099473604e-05 53 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA450541 34480555 5 2880459 2880511 Syncephalastrum racemosum 13706 ATG|GTAAGGGACT...AGTACCATTCCA/CCAATACGCAAT...GACAG|GTC 0 1 43.733
193751425 GT-AG 0 1.7740908814147235e-05 51 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA450541 34480555 6 2880905 2880955 Syncephalastrum racemosum 13706 GTT|GTAAGTACAT...CATTCCTTATGG/AGAATACTCACA...GGCAG|TCA 0 1 55.896
193751426 GT-AG 0 1.000000099473604e-05 51 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA450541 34480555 7 2881061 2881111 Syncephalastrum racemosum 13706 AAG|GTAAATACGA...CGTCCACTGACG/CGTCCACTGACG...CGTAG|GAA 0 1 59.146
193751427 GT-AG 0 1.000000099473604e-05 52 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA450541 34480555 8 2881674 2881725 Syncephalastrum racemosum 13706 AGG|GTAAGTAGAC...TGAACTTTGAAT/ATATGTCTAAAC...TGCAG|GCG 1 1 76.54
193751428 GT-AG 0 5.850455246878239e-05 51 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA450541 34480555 9 2882049 2882099 Syncephalastrum racemosum 13706 GAG|GTAGGCCTTG...TCTGCTCTAACG/TAAATATTTATT...AATAG|GCT 0 1 86.537

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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 27.958ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)