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 = 2121793

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Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
11621111 GT-AG 0 0.0382446167224166 73 rna-XM_009823788.1 2121793 1 2474384 2474456 Aphanomyces astaci 112090 GAG|GTAGCCTATT...TCTGTCTCATTC/ATCTGTCTCATT...ATTAG|ATG 0 1 21.275
11621112 GT-AG 0 4.9264663082827816e-05 76 rna-XM_009823788.1 2121793 2 2475915 2475990 Aphanomyces astaci 112090 CGG|GTATGTACAA...GTCGTCGTATTC/TAAACACTCAAC...TGTAG|ACG 0 1 58.602
11621113 GT-AG 0 1.000000099473604e-05 46 rna-XM_009823788.1 2121793 3 2476394 2476439 Aphanomyces astaci 112090 CAG|GTACGCATGT...GAAGGCTAAGAG/TGAAGGCTAAGA...AGTAG|GCC 1 1 68.92
11621114 GT-AG 0 0.000829345334193 204 rna-XM_009823788.1 2121793 4 2476660 2476863 Aphanomyces astaci 112090 CAA|GTACGTCTGG...GTCTCCTAAACT/ATAATATTCACA...CCCAG|TGG 2 1 74.552
11621115 GT-AG 0 0.0006678462025699 76 rna-XM_009823788.1 2121793 5 2477048 2477123 Aphanomyces astaci 112090 TGG|GTACGCATGC...ACCGTCTTCACG/ATGATGCTGAAC...AGTAG|AAG 0 1 79.263
11621116 GT-AG 0 1.000000099473604e-05 54 rna-XM_009823788.1 2121793 6 2477165 2477218 Aphanomyces astaci 112090 GCG|GTACGTAGGT...TGCGTGTTGAAT/TGATGGCTGATG...CGCAG|GTA 2 1 80.312
11621117 GT-AG 0 0.0021438930003498 87 rna-XM_009823788.1 2121793 7 2477349 2477435 Aphanomyces astaci 112090 CCG|GTATGTTGTG...ATGATCGTAGTT/TCGTGCATGATC...TGTAG|GCG 0 1 83.641
11621118 GT-AG 0 3.0027793253553117e-05 55 rna-XM_009823788.1 2121793 8 2477703 2477757 Aphanomyces astaci 112090 CCC|GTTCGTATCT...ATCCTCTTTCCC/TGTCAACTAACG...GTTAG|CTG 0 1 90.476

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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]);