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 = 22370910

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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
121406270 GT-AG 0 1.000000099473604e-05 316 rna-XM_024170042.1 22370910 1 165410 165725 Morus notabilis 981085 CAG|GTAATATTCT...TGTCTGTTATTT/ATGTCTGTTATT...AAAAG|GTT 0 1 16.523
121406271 GT-AG 0 0.0015768137093301 112 rna-XM_024170042.1 22370910 2 165882 165993 Morus notabilis 981085 GTG|GTATGGTTAT...TATTTTTTGATT/TATTTTTTGATT...TCCAG|GAT 0 1 22.935
121406272 GT-AG 0 1.000000099473604e-05 256 rna-XM_024170042.1 22370910 3 166129 166384 Morus notabilis 981085 CAG|GTGTTTCTTC...TACTTTTTGTTT/TGGAGGATCATG...TGCAG|GAT 0 1 28.483
121406273 GT-AG 0 1.8420162924038765e-05 2007 rna-XM_024170042.1 22370910 4 166544 168550 Morus notabilis 981085 GAG|GTCTGTTAGT...AATTTTTTCACT/AATTTTTTCACT...TTCAG|CAT 0 1 35.018
121406274 GT-AG 0 0.0391542120044675 694 rna-XM_024170042.1 22370910 5 168644 169337 Morus notabilis 981085 AAG|GTTTCCAATT...TTTCTCTTCATG/TTTCTCTTCATG...ACCAG|GTG 0 1 38.841
121406275 GT-AG 0 5.04126818969538e-05 1123 rna-XM_024170042.1 22370910 6 169455 170577 Morus notabilis 981085 CAG|GTATTGGTAG...TTCATTTTGATG/GGTTTATTCATT...TGCAG|ATA 0 1 43.65
121406276 GT-AG 0 1.000000099473604e-05 5291 rna-XM_024170042.1 22370910 7 170653 175943 Morus notabilis 981085 AAG|GTACAAACAA...TCTCCTTTGATG/TCTCCTTTGATG...TACAG|ACA 0 1 46.732
121406277 GT-AG 0 0.0003396364638926 1063 rna-XM_024170042.1 22370910 8 176168 177230 Morus notabilis 981085 CAG|GTGTGCTTTT...TCTCACTTAAAT/GTTAGTCTCACT...TTCAG|GCA 2 1 55.939

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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]);