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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)

10 rows where transcript_id = 2279651

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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
12240156 GT-AG 0 5.885311811008199e-05 7338 rna-XM_027997991.1 2279651 1 2608578 2615915 Aphis gossypii 80765 TGG|GTAAGTTTAT...ATTTTTTTAGAT/CTGATTTTTATG...TTTAG|AAA 1 1 0.472
12240157 GT-AG 0 1.09505999158525e-05 137 rna-XM_027997991.1 2279651 2 2608375 2608511 Aphis gossypii 80765 ACA|GTTAGTTATA...AATTCTTTATTA/TTGTATTTTATT...AATAG|GTG 1 1 4.926
12240158 GT-AG 0 0.0089917101402596 788 rna-XM_027997991.1 2279651 3 2607408 2608195 Aphis gossypii 80765 CCA|GTATGTTAAT...TTTTTTCTAATA/TTTTTTCTAATA...TGCAG|AAT 0 1 17.004
12240159 GT-AG 0 1.000000099473604e-05 4000 rna-XM_027997991.1 2279651 4 2603174 2607173 Aphis gossypii 80765 GAA|GTAAGTGTCA...TAATTCTTTATG/TAATTCTTTATG...ATTAG|GGC 0 1 32.794
12240160 GT-AG 0 1.000000099473604e-05 75 rna-XM_027997991.1 2279651 5 2603011 2603085 Aphis gossypii 80765 CAG|GTAAATATTA...AAAAGTTTAACT/ATATTGTTTACC...ATTAG|GAA 1 1 38.731
12240161 GT-AG 0 1.000000099473604e-05 76 rna-XM_027997991.1 2279651 6 2602711 2602786 Aphis gossypii 80765 AAG|GTAAACGTTC...ATCCATTTATTC/CAGGGTTTCATC...TTCAG|AAT 0 1 53.846
12240162 GT-AG 0 1.000000099473604e-05 278 rna-XM_027997991.1 2279651 7 2602277 2602554 Aphis gossypii 80765 GAA|GTGAGCAGTC...TATACCTAATAT/ATTAAATTCATT...TTTAG|ACC 0 1 64.372
12240163 GT-AG 0 3.635733091943428e-05 652 rna-XM_027997991.1 2279651 8 2601492 2602143 Aphis gossypii 80765 TAG|GTATAAAATT...TTTCTTTTGAGC/TTTCTTTTGAGC...TTCAG|CTT 1 1 73.347
12240164 GT-AG 0 0.0001526856325395 60 rna-XM_027997991.1 2279651 9 2601193 2601252 Aphis gossypii 80765 AAT|GTAGTGTACA...TTTTTTTTAACA/TTTTTTTTAACA...TATAG|AAT 0 1 89.474
12240165 GT-AG 0 1.000000099473604e-05 1082 rna-XM_027997991.1 2279651 10 2599969 2601050 Aphis gossypii 80765 GTG|GTGAGTAATG...CTTTTTTTAATT/CTTTTTTTAATT...TCTAG|ATA 1 1 99.055

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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 24.299ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)