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 = 20781810

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Suggested facets: dinucleotide_pair, 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
111341861 GT-AG 0 1.000000099473604e-05 2089 rna-XM_021778721.2 20781810 2 30684985 30687073 Manihot esculenta 3983 GAG|GTTGGTATAC...TGTTTCTAATCC/GTGTTTCTAATC...CTCAG|CTG 0 1 10.986
111341862 GT-AG 0 3.4954639932765854e-05 1152 rna-XM_021778721.2 20781810 3 30683623 30684774 Manihot esculenta 3983 GAT|GTAAGATTTA...GTTCTGTTAATA/CTGTTAATAATT...TGCAG|TTG 0 1 16.74
111341863 GT-AG 0 0.1313967167183562 90 rna-XM_021778721.2 20781810 4 30683279 30683368 Manihot esculenta 3983 AGA|GTATTCTCAG...CTTGTCTGATCT/ACTTGTCTGATC...TTCAG|GAG 2 1 23.699
111341864 GC-AG 0 0.0007144951435366 80 rna-XM_021778721.2 20781810 5 30682928 30683007 Manihot esculenta 3983 AAG|GCATGCCTTT...GATTCTTTAACT/TCCTGTTTTATT...TGCAG|GAA 0 1 31.123
111341865 GT-AG 0 1.000000099473604e-05 369 rna-XM_021778721.2 20781810 6 30682475 30682843 Manihot esculenta 3983 AAA|GTGAGTGCTT...TCTGTCTTAGTC/TATGTATTTATT...TACAG|GTT 0 1 33.425
111341866 GT-AG 0 2.818187370542151e-05 237 rna-XM_021778721.2 20781810 7 30680178 30680414 Manihot esculenta 3983 GCG|GTAAGTTCTC...TTCTCCTCATAT/ATTCTCCTCATA...ACCAG|TGG 2 1 89.863
111341867 GT-AG 0 1.000000099473604e-05 115 rna-XM_021778721.2 20781810 8 30679936 30680050 Manihot esculenta 3983 CAG|GTGAGTGCTG...TTTGTTCTATCT/ACTGGTGTCATC...GGCAG|TTG 0 1 93.342
111351964 GT-AG 0 1.000000099473604e-05 267 rna-XM_021778721.2 20781810 1 30687357 30687623 Manihot esculenta 3983 CCG|GTTCGTGTCC...TTTGTTTTAAGG/AAGGTTTTTATG...TGCAG|ATT   0 4.247

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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]);