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 = 30001182

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
168077780 GT-AG 0 1.1233640547403233e-05 225 rna-XM_009335981.2 30001182 1 2168762 2168986 Pyrus x bretschneideri 225117 CAG|GTACTTGGAA...TGTTTCTAAATT/TTCTTTCTAATT...TGAAG|ATG 2 1 2.091
168077781 GT-AG 0 0.0039265744513376 103 rna-XM_009335981.2 30001182 2 2169164 2169266 Pyrus x bretschneideri 225117 AAG|GTACTTCTCA...TTCTCTTTAATT/AATTTTTTGAAT...GGCAG|ATT 2 1 9.073
168077782 GT-AG 0 0.0776677918864517 332 rna-XM_009335981.2 30001182 3 2169365 2169696 Pyrus x bretschneideri 225117 AAG|GTATCTCATC...TGATTCCTAATG/TGTAATTTGATT...ATCAG|GAG 1 1 12.939
168077783 GT-AG 0 0.0022618496614257 96 rna-XM_009335981.2 30001182 4 2169747 2169842 Pyrus x bretschneideri 225117 AAG|GTATTTTACA...ATATCATTACTT/CTAATATTTATT...TTCAG|AAA 0 1 14.911
168077784 GT-AG 0 0.0507129452618569 106 rna-XM_009335981.2 30001182 5 2169893 2169998 Pyrus x bretschneideri 225117 CAA|GTAACTATTT...GTATCTTTATCA/TTATCATTAATT...GACAG|GGT 2 1 16.884
168077785 GT-AG 0 1.000000099473604e-05 135 rna-XM_009335981.2 30001182 6 2170152 2170286 Pyrus x bretschneideri 225117 AAG|GTATGAACTC...AGTCTCTTAAGA/TCTGTAATGACG...TGTAG|GGA 2 1 22.919
168077786 GT-AG 0 1.000000099473604e-05 110 rna-XM_009335981.2 30001182 7 2172046 2172155 Pyrus x bretschneideri 225117 AAG|GTAAATAATG...CATATTTTGATT/CATATTTTGATT...AACAG|GAA 0 1 92.308

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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]);