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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 = 3485068

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Suggested facets: score, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
17202825 GT-AG 0 1.000000099473604e-05 695 rna-gnl|WGS:SAUD|Avbf_03124-RA_mrna 3485068 9 40351 41045 Armadillidium vulgare 13347 GAG|GTAATAAAAG...ATAGTTTTAAAA/ATAGTTTTAAAA...CACAG|ATA 1 1 79.663
17202826 GT-AG 0 1.000000099473604e-05 369 rna-gnl|WGS:SAUD|Avbf_03124-RA_mrna 3485068 10 39842 40210 Armadillidium vulgare 13347 CAG|GTAATAAAAG...ATTATTTTATAA/ATTTAATTAATT...TTCAG|TAT 0 1 89.481
17202829 GT-AG 0 1.000000099473604e-05 1705 rna-gnl|WGS:SAUD|Avbf_03124-RA_mrna 3485068 1 46257 47961 Armadillidium vulgare 13347 TTG|GTGAGTTCTT...TTATTATTATTA/ATATTATTTATG...TATAG|AAA   0 13.534
17202830 GT-AG 0 1.000000099473604e-05 145 rna-gnl|WGS:SAUD|Avbf_03124-RA_mrna 3485068 2 46001 46145 Armadillidium vulgare 13347 CAC|GTAAGTATGA...ATATATATATTT/TATATATATATT...TTCAG|AAT   0 21.318
17202831 GT-AG 0 0.0001214862668413 85 rna-gnl|WGS:SAUD|Avbf_03124-RA_mrna 3485068 3 45772 45856 Armadillidium vulgare 13347 CAA|GTAAATTGCA...TATTACTTATCA/AGTTTATTCATT...TTTAG|ATA   0 31.417
17202832 GT-AG 0 1.000000099473604e-05 2502 rna-gnl|WGS:SAUD|Avbf_03124-RA_mrna 3485068 4 43147 45648 Armadillidium vulgare 13347 GAA|GTGAGTTTGT...TTTTGTTTAGTT/TTTTTGTTTAGT...CACAG|GTG   0 40.042
17202833 GT-AG 0 0.0002153468386687 213 rna-gnl|WGS:SAUD|Avbf_03124-RA_mrna 3485068 5 42813 43025 Armadillidium vulgare 13347 AGG|GTAAGTTTTA...AATTCTTTAGAT/CTACTTTTAAAA...TTCAG|ATC   0 48.527
17202834 GT-AG 0 1.000000099473604e-05 361 rna-gnl|WGS:SAUD|Avbf_03124-RA_mrna 3485068 6 42292 42652 Armadillidium vulgare 13347 AAG|GTAAGTACAA...ATTTATTTATCT/CATTGATTTATT...TTCAG|CTT   0 59.748
17202835 GT-AG 0 0.0001878897553249 156 rna-gnl|WGS:SAUD|Avbf_03124-RA_mrna 3485068 7 42014 42169 Armadillidium vulgare 13347 CAG|GTACACGGAT...TATTCTTTATTA/TTGTTATTTATT...TTCAG|AAA   0 68.303
17202836 GT-AG 0 6.824138424936022e-05 751 rna-gnl|WGS:SAUD|Avbf_03124-RA_mrna 3485068 8 41144 41894 Armadillidium vulgare 13347 AAG|GTATTATTAT...TATATATTATAT/ATATATATAATT...TGTAG|GAT   0 76.648

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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 25.044ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)