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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 = 6831663

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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
35541493 GT-AG 0 1.000000099473604e-05 2610 rna-XM_009702066.1 6831663 1 31470 34079 Cariama cristata 54380 AAG|GTAAGACTGC...ACTGCTTTAAAA/ACTGCTTTAAAA...CACAG|TGC 0 1 2.404
35541494 GT-AG 0 0.002400279652255 1531 rna-XM_009702066.1 6831663 2 29843 31373 Cariama cristata 54380 CTG|GTATGTATAC...TGGCTCTTATTT/GTGGCTCTTATT...TCTAG|ATG 0 1 6.126
35541495 GT-AG 0 1.000000099473604e-05 2551 rna-XM_009702066.1 6831663 3 27208 29758 Cariama cristata 54380 AAT|GTGAGTATTT...GCATCTTTGAAT/TTGAATTTGACT...TACAG|GTA 0 1 9.383
35541496 GT-AG 0 1.000000099473604e-05 1765 rna-XM_009702066.1 6831663 4 25350 27114 Cariama cristata 54380 CAG|GTAATAAAAC...TTCACCTTTTAT/GCGTGTTTCACC...TACAG|ATT 0 1 12.99
35541497 GT-AG 0 0.0001036339951152 1788 rna-XM_009702066.1 6831663 5 23371 25158 Cariama cristata 54380 AAA|GTAAGCTAAC...GATTTTGTAACG/CTGTATGTAATT...TTTAG|GTA 2 1 20.396
35541498 GT-AG 0 1.000000099473604e-05 1007 rna-XM_009702066.1 6831663 6 22170 23176 Cariama cristata 54380 AAG|GTAAAACGCC...AGCATTTTAAAG/TGTGTACTCAAG...CATAG|ATA 1 1 27.918
35541499 GT-AG 0 0.0015226189089645 1443 rna-XM_009702066.1 6831663 7 20644 22086 Cariama cristata 54380 GGG|GTATGTGTTT...TGGCTTTTAATG/TGTATCATCACT...TATAG|GAA 0 1 31.136
35541500 GT-AG 0 0.0116135161328948 1044 rna-XM_009702066.1 6831663 8 18283 19326 Cariama cristata 54380 GAG|GTATTTCATT...TATTTCTTAATT/TATTTCTTAATT...AACAG|GCC 0 1 82.202
35541501 GT-AG 0 0.0002503743153786 1540 rna-XM_009702066.1 6831663 9 16561 18100 Cariama cristata 54380 CAG|GTATTTCACA...TTTGCTTTTGCA/CTTAGCTTTATG...TTCAG|AAC 2 1 89.259
35541502 GT-AG 0 1.000000099473604e-05 1036 rna-XM_009702066.1 6831663 10 15464 16499 Cariama cristata 54380 GAG|GTAAGTATGT...TTTTTTTTATAT/CTATTTCTGATT...TTAAG|GAA 0 1 91.625
35541503 GT-AG 0 1.000000099473604e-05 1534 rna-XM_009702066.1 6831663 11 13868 15401 Cariama cristata 54380 CAG|GTGAGTCATT...TGCCTCTTATCA/CTGCCTCTTATC...TTCAG|GAA 2 1 94.029

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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 27.609ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)