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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 = 34480575

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Suggested facets: dinucleotide_pair, score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
193751595 GT-AG 0 1.000000099473604e-05 53 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559529 34480575 1 1313620 1313672 Syncephalastrum racemosum 13706 AAG|GTACGTCCCA...ATACTCTCATTC/CATACTCTCATT...TACAG|ATT 1 1 27.138
193751596 GT-AG 0 6.123323202094957e-05 45 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559529 34480575 2 1314214 1314258 Syncephalastrum racemosum 13706 ACA|GTAAGTTGGG...CTTCTCTTACAT/CCTTCTCTTACA...TATAG|GCG 2 1 43.487
193751597 GT-AG 0 0.0044532356994583 58 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559529 34480575 3 1314449 1314506 Syncephalastrum racemosum 13706 AAG|GTATACCGTT...CGGGTTTTGAAA/GATGTACTCACT...AGCAG|CGG 0 1 49.229
193751598 GT-AG 0 4.282214043003273e-05 46 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559529 34480575 4 1314579 1314624 Syncephalastrum racemosum 13706 GAG|GTAAGCTCGA...GAAACTTTACTC/ACTTTACTCATT...AATAG|ATC 0 1 51.405
193751599 GT-AG 0 2.794901123419285e-05 48 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559529 34480575 5 1314864 1314911 Syncephalastrum racemosum 13706 AGA|GTAAGTCTCC...ATACTCTGAATT/TCTGAATTCACA...ATTAG|GAC 2 1 58.628
193751600 GT-AG 0 1.000000099473604e-05 70 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559529 34480575 6 1315212 1315281 Syncephalastrum racemosum 13706 CAT|GTGAGTGAAT...CATACTTTATCT/ATTTCACTCATA...CAAAG|TTT 2 1 67.694
193751601 GT-AG 0 1.000000099473604e-05 63 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559529 34480575 7 1315668 1315730 Syncephalastrum racemosum 13706 GTG|GTAAGTAAAG...GCGCTCATGACC/ACAGCGCTCATG...CTTAG|AGG 1 1 79.359
193757521 CT-AC 0 0.0102423744145367 55 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559529 34480575 8 1316294 1316348 Syncephalastrum racemosum 13706 TAT|CTTTGCAATG...TTTTCCTTTGTC/TGAGCCCTTACA...CTTAC|CTC   0 96.374

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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 27.594ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)