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)

9 rows where transcript_id = 38690321

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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
213933130 GT-AG 0 1.000000099473604e-05 215 rna-XM_016044877.2 38690321 1 35644367 35644581 Ziziphus jujuba 326968 AAG|GTAATTCATG...TTTTCTTTATAC/TGATTATTTACT...AACAG|GAG 0 1 52.89
213933131 GT-AG 0 3.941408122363092e-05 95 rna-XM_016044877.2 38690321 2 35644185 35644279 Ziziphus jujuba 326968 TTG|GTAAGCAATT...TGCTTTTTATCT/CTGCTTTTTATC...CTTAG|GTA 0 1 54.817
213933132 GT-AG 0 1.000000099473604e-05 82 rna-XM_016044877.2 38690321 3 35643458 35643539 Ziziphus jujuba 326968 AGA|GTTAGTGAAT...ATGACTTTATTT/AACAATTTCATT...TGCAG|GCT 0 1 69.103
213933133 GT-AG 0 0.0150041897785362 322 rna-XM_016044877.2 38690321 4 35642971 35643292 Ziziphus jujuba 326968 CAG|GTATATTTTT...TATGTCTGAGAT/GAGATTCTAACA...CGCAG|CAA 0 1 72.757
213933134 GT-AG 0 1.000000099473604e-05 146 rna-XM_016044877.2 38690321 5 35642530 35642675 Ziziphus jujuba 326968 CAG|GTGAGTATTC...ATTTTCTTAATT/ATTTTCTTAATT...AAAAG|GCA 1 1 79.291
213933135 GT-AG 0 1.000000099473604e-05 109 rna-XM_016044877.2 38690321 6 35642206 35642314 Ziziphus jujuba 326968 CAG|GTACTTCCAA...TCTATGTTGATG/TCTATGTTGATG...TGTAG|GTA 0 1 84.053
213933136 GT-AG 0 1.000000099473604e-05 79 rna-XM_016044877.2 38690321 7 35641821 35641899 Ziziphus jujuba 326968 GAG|GTGGGTTTAT...TTTTCTTTATAG/ATTTTCTTTATA...TTTAG|GCG 0 1 90.831
213933137 GT-AG 0 0.000224803340117 105 rna-XM_016044877.2 38690321 8 35641652 35641756 Ziziphus jujuba 326968 CAG|GTTTGTTTTC...TTATTCTTCGTA/TTCGTACTAAAC...TACAG|TTG 1 1 92.248
213933138 GT-AG 0 0.0003034394384062 96 rna-XM_016044877.2 38690321 9 35641316 35641411 Ziziphus jujuba 326968 ATG|GTATGTAACA...TCAGTTTTATCA/TTGATTTTCAGT...TGCAG|GGC 1 1 97.564

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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]);