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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 = 3485055

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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
17202744 GT-AG 0 1.000000099473604e-05 600 rna-gnl|WGS:SAUD|Avbf_03531-RA_mrna 3485055 4 29751 30350 Armadillidium vulgare 13347 AAG|GTTAGAAATT...ATATATTTAAAA/TTACCATTTATT...GCCAG|GTT 0 1 52.577
17202745 GT-AG 0 1.6950434165075916e-05 498 rna-gnl|WGS:SAUD|Avbf_03531-RA_mrna 3485055 5 30526 31023 Armadillidium vulgare 13347 ATA|GTAAGTCAAA...TGATTTTTGATT/TTTTGATTTACT...GACAG|AAT 1 1 62.6
17202746 GT-AG 0 1.000000099473604e-05 369 rna-gnl|WGS:SAUD|Avbf_03531-RA_mrna 3485055 6 31181 31549 Armadillidium vulgare 13347 AAG|GTACAAATTA...GTGTCTTTCTTT/ATAATTCTTACG...ATCAG|CAA 2 1 71.592
17202747 GT-AG 0 1.000000099473604e-05 466 rna-gnl|WGS:SAUD|Avbf_03531-RA_mrna 3485055 7 31682 32147 Armadillidium vulgare 13347 CCA|GTAAGTAAAT...AAAATCTTTTCT/TTAGTAGTAAAA...CACAG|AAT 2 1 79.152
17202748 GT-AG 0 0.0023152560963207 1423 rna-gnl|WGS:SAUD|Avbf_03531-RA_mrna 3485055 8 32333 33755 Armadillidium vulgare 13347 TTG|GTATATATAT...CTTTTCATAATA/AATTTATTTACT...TACAG|GCC 1 1 89.748
17202750 GT-AG 0 1.000000099473604e-05 2158 rna-gnl|WGS:SAUD|Avbf_03531-RA_mrna 3485055 1 23828 25985 Armadillidium vulgare 13347 GAG|GTACGAATTT...ATTTACTTATTT/AATTTACTTATT...TTCAG|TTC   0 28.293
17202751 GT-AG 0 1.000000099473604e-05 1503 rna-gnl|WGS:SAUD|Avbf_03531-RA_mrna 3485055 2 26148 27650 Armadillidium vulgare 13347 AAG|GTTTGTCGAT...ATATATATATAT/TATATATATATA...ATCAG|ATA   0 37.572
17202752 GT-AG 0 1.000000099473604e-05 1765 rna-gnl|WGS:SAUD|Avbf_03531-RA_mrna 3485055 3 27838 29602 Armadillidium vulgare 13347 GAG|GTTAGTAGTA...TGATTTTTAGTC/TTTAATTTTATT...GCCAG|ATG   0 48.282

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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 22.396ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)