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)

7 rows where transcript_id = 8594538

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Suggested facets: score, length, 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
46265379 GT-AG 0 1.000000099473604e-05 96 rna-XM_006466549.3 8594538 2 25396439 25396534 Citrus sinensis 2711 CTG|GTGCAGTCTT...TATTACTTAATT/CATTATTTTATT...GACAG|CTG 0 1 70.043
46265380 GT-AG 0 0.004308478495403 77 rna-XM_006466549.3 8594538 3 25396108 25396184 Citrus sinensis 2711 CAA|GTATTTGCCC...GAAGTCTTAATC/CTTAATCTCATT...TGCAG|GTC 2 1 73.363
46265381 GT-AG 0 1.000000099473604e-05 793 rna-XM_006466549.3 8594538 4 25395170 25395962 Citrus sinensis 2711 CAG|GTGTGTCGAA...ATGTTTTTGATG/ATGTTTTTGATG...GCAAG|GTC 0 1 75.258
46265382 GT-AG 0 1.000000099473604e-05 86 rna-XM_006466549.3 8594538 5 25394885 25394970 Citrus sinensis 2711 TTG|GTGGGCATTT...CATTTTTTACTG/TCATTTTTTACT...TGCAG|GTG 1 1 77.859
46265383 GT-AG 0 1.000000099473604e-05 96 rna-XM_006466549.3 8594538 6 25394453 25394548 Citrus sinensis 2711 CAG|GTAAAAATCT...TAGATTTTAATT/TTTTTTCTCATG...TGTAG|CAG 1 1 82.251
46265384 GT-AG 0 1.418287607561062e-05 269 rna-XM_006466549.3 8594538 7 25393483 25393751 Citrus sinensis 2711 CAG|GTGGACATTT...TTTTTTTTATCT/TTTTTTTTTATC...TCCAG|CCC 0 1 91.413
46275480 GT-AG 0 0.0025632778963759 187 rna-XM_006466549.3 8594538 1 25401818 25402004 Citrus sinensis 2711 GAG|GTACGCCTCT...AAATTTTTGATT/AAATTTTTGATT...ATCAG|GGT   0 3.032

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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]);