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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)

9 rows where transcript_id = 26266706

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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
145335380 GT-AG 0 1.000000099473604e-05 42077 rna-gnl|WGS:JTDE|EG68_00017 26266706 1 207787 249863 Paragonimus skrjabini miyazakii 59628 GCG|GTGAGTTGGG...ACACCTCTGATT/ATGTATATGACT...AACAG|TAA 1 1 4.995
145335381 GT-AG 0 1.000000099473604e-05 20849 rna-gnl|WGS:JTDE|EG68_00017 26266706 2 249960 270808 Paragonimus skrjabini miyazakii 59628 GAG|GTAAGTGCAA...CGAATGTTATCT/AATCAACTGACG...TACAG|GTC 1 1 14.217
145335382 GT-AG 0 1.000000099473604e-05 4246 rna-gnl|WGS:JTDE|EG68_00017 26266706 3 270970 275215 Paragonimus skrjabini miyazakii 59628 CAG|GTTGGTGCTT...TACTTTTTACAT/ACTTTGCTAACG...TTCAG|ATT 0 1 29.683
145335383 GT-AG 0 0.0116408989177583 4192 rna-gnl|WGS:JTDE|EG68_00017 26266706 4 275405 279596 Paragonimus skrjabini miyazakii 59628 GAG|GTAACCGTGA...TTTTCCTCAATG/ATTTTCCTCAAT...TTCAG|TTA 0 1 47.839
145335384 GT-AG 0 1.000000099473604e-05 6764 rna-gnl|WGS:JTDE|EG68_00017 26266706 5 279693 286456 Paragonimus skrjabini miyazakii 59628 CAG|GTAATCGGAC...CCTTCTCTAATT/CCTTCTCTAATT...CACAG|CTT 0 1 57.061
145335385 GT-AG 0 0.0001282551668888 3963 rna-gnl|WGS:JTDE|EG68_00017 26266706 6 286524 290486 Paragonimus skrjabini miyazakii 59628 AAG|GTACGTTTGT...TTTCTCTTCCCG/CTCTTCCCGATC...TGCAG|GTC 1 1 63.497
145335386 GT-AG 0 0.0017251926054262 9133 rna-gnl|WGS:JTDE|EG68_00017 26266706 7 290642 299774 Paragonimus skrjabini miyazakii 59628 CAG|GTATGCAATT...CGTGTTTTATTC/GTTTTATTCACA...TGCAG|CTC 0 1 78.386
145335387 GT-AG 0 1.000000099473604e-05 170 rna-gnl|WGS:JTDE|EG68_00017 26266706 8 299901 300070 Paragonimus skrjabini miyazakii 59628 AAA|GTGAGTGTGT...TTATTCTTATCA/ATTATTCTTATC...AACAG|GAC 0 1 90.49
145335388 GT-AG 0 6.67077441076456e-05 1566 rna-gnl|WGS:JTDE|EG68_00017 26266706 9 300111 301676 Paragonimus skrjabini miyazakii 59628 TCG|GTAAGTTTGT...ACATCTTTCACT/ACATCTTTCACT...TGCAG|CTA 1 1 94.332

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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 26.889ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)