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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 = 26266786

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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
145335931 GT-AG 0 5.71469395087171e-05 34 rna-gnl|WGS:JTDE|EG68_00111 26266786 1 86987 87020 Paragonimus skrjabini miyazakii 59628 GCT|GTACGTAGTT...ACGTCATTTTTC/GTGAACGTCATT...TTTAG|TTT 0 1 7.597
145335932 GT-AG 0 0.0033995967429421 53 rna-gnl|WGS:JTDE|EG68_00111 26266786 2 87252 87304 Paragonimus skrjabini miyazakii 59628 GGA|GTATGTTGAC...CTTTTTTTTGCG/CGTGTATTCAAT...TATAG|GTA 0 1 21.201
145335933 GT-AG 0 4.161854214741284e-05 8701 rna-gnl|WGS:JTDE|EG68_00111 26266786 3 87602 96302 Paragonimus skrjabini miyazakii 59628 AAG|GTACTTCATT...TGCCTTTTATTT/ATACTTTTCATT...TGTAG|CGA 0 1 38.693
145335934 GT-AG 0 1.000000099473604e-05 6328 rna-gnl|WGS:JTDE|EG68_00111 26266786 4 96348 102675 Paragonimus skrjabini miyazakii 59628 GAG|GTTAGTGAAA...CTCACCTTGAAT/TGTTTTTTCACT...TTTAG|TCT 0 1 41.343
145335935 GT-AG 0 0.0012437500449485 6105 rna-gnl|WGS:JTDE|EG68_00111 26266786 5 102896 109000 Paragonimus skrjabini miyazakii 59628 AAA|GTAAATTGTT...GTTGCTTTATCT/CGAAAATTCACT...CCAAG|TTC 1 1 54.299
145335936 GT-AG 0 1.000000099473604e-05 6136 rna-gnl|WGS:JTDE|EG68_00111 26266786 6 109068 115203 Paragonimus skrjabini miyazakii 59628 CAA|GTGAGTTTAC...AGTTTCTGAATC/CGTCATCTCACT...TTCAG|TGC 2 1 58.245
145335937 GT-AG 0 0.0003447826401706 1315 rna-gnl|WGS:JTDE|EG68_00111 26266786 7 115267 116581 Paragonimus skrjabini miyazakii 59628 GAA|GTAAGCACTT...TAAGTCTTGATA/TAAGTCTTGATA...AACAG|GAT 2 1 61.955
145335938 GT-AG 0 1.000000099473604e-05 2470 rna-gnl|WGS:JTDE|EG68_00111 26266786 8 116752 119221 Paragonimus skrjabini miyazakii 59628 ATG|GTTAGTTTTG...TTCTCGTTATTC/GTTATTCTTACG...TGCAG|GTG 1 1 71.967
145335939 GT-AG 0 0.0016220730308647 89 rna-gnl|WGS:JTDE|EG68_00111 26266786 9 119305 119393 Paragonimus skrjabini miyazakii 59628 CAA|GTATGTGTTT...ATATCCATGATG/ATGATGATCATT...TACAG|GGT 0 1 76.855
145335940 GT-AG 0 1.000000099473604e-05 1555 rna-gnl|WGS:JTDE|EG68_00111 26266786 10 119624 121178 Paragonimus skrjabini miyazakii 59628 AAG|GTTAGTTTTC...ACTATTTTAATC/ACTATTTTAATC...CACAG|CCT 2 1 90.4

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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 36.627ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)