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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)

12 rows where transcript_id = 2279582

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Suggested facets: 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
12239534 GT-AG 0 1.000000099473604e-05 735 rna-XM_027998621.1 2279582 3 5265682 5266416 Aphis gossypii 80765 ACG|GTAAGTGTAG...CGTTACTTGATA/TAATGATTTATT...CATAG|GTT 0 1 33.11
12239535 GT-AG 0 1.000000099473604e-05 1671 rna-XM_027998621.1 2279582 4 5263440 5265110 Aphis gossypii 80765 GTG|GTGAGTTTTC...ATACTCATAAAA/TAAAAACTCATT...TTTAG|GTC 1 1 45.053
12239536 GT-AG 0 1.000000099473604e-05 4380 rna-XM_027998621.1 2279582 5 5257673 5262052 Aphis gossypii 80765 CGG|GTGAGTTTGA...TTATTTTTAACC/TTATTTTTAACC...TGCAG|TGG 2 1 74.064
12239537 GT-AG 0 1.000000099473604e-05 741 rna-XM_027998621.1 2279582 6 5256565 5257305 Aphis gossypii 80765 CAG|GTACGTCATC...ACGTTTTTGTTT/TTCATGTTCACG...CACAG|GGT 0 1 81.74
12239538 GT-AG 0 1.000000099473604e-05 223 rna-XM_027998621.1 2279582 7 5256219 5256441 Aphis gossypii 80765 ATG|GTGAGTTTGT...TCGTTTTTGATT/TCGTTTTTGATT...CACAG|GTG 0 1 84.313
12239539 GT-AG 0 9.09953260525542e-05 91 rna-XM_027998621.1 2279582 8 5255987 5256077 Aphis gossypii 80765 TCC|GTAAGTGTTT...TTTTTCTTTCCA/ATCCCGTTTATT...TACAG|TTG 0 1 87.262
12239540 GT-AG 0 1.000000099473604e-05 1414 rna-XM_027998621.1 2279582 9 5254471 5255884 Aphis gossypii 80765 AAG|GTAATATTCA...CAATATTTAATA/CAATATTTAATA...GTCAG|GTG 0 1 89.396
12239541 GT-AG 0 1.000000099473604e-05 134 rna-XM_027998621.1 2279582 10 5254175 5254308 Aphis gossypii 80765 AAG|GTGAGTCTGT...TAATGCGTGATT/TTACATTTCATT...TTCAG|CCT 0 1 92.784
12239542 GT-AG 0 1.000000099473604e-05 373 rna-XM_027998621.1 2279582 11 5253685 5254057 Aphis gossypii 80765 CGG|GTAAGTAGTA...TGTATTTTAATC/TGTATTTTAATC...TTCAG|GAA 0 1 95.231
12239543 GT-AG 0 0.0001089415934787 456 rna-XM_027998621.1 2279582 12 5253127 5253582 Aphis gossypii 80765 AAA|GTAAGTTTTT...CCAACCTGAACT/TCGTATGTAACC...TTTAG|GGC 0 1 97.365
12240572 GT-AG 0 1.000000099473604e-05 32157 rna-XM_027998621.1 2279582 1 5303134 5335290 Aphis gossypii 80765 AAG|GTAAGATATT...ATGTCTTTATTT/TATGTCTTTATT...TTCAG|GTG   0 9.726
12240573 GT-AG 0 1.000000099473604e-05 35546 rna-XM_027998621.1 2279582 2 5267502 5303047 Aphis gossypii 80765 GAG|GTCAGTCTAT...TAATTCTTATCA/ATAATTCTTATC...TTTAG|GTC   0 11.525

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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 26.543ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)