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 = 13705588

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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
72997547 GT-AG 0 1.000000099473604e-05 1129 rna-XM_007520392.1 13705588 1 462410 463538 Erinaceus europaeus 9365 GGG|GTGAGCGGGC...CAGCCCGGAACC/GGGGCGCTGACC...CACAG|GGA 2 1 6.025
72997548 GT-AG 0 1.000000099473604e-05 6876 rna-XM_007520392.1 13705588 2 463678 470553 Erinaceus europaeus 9365 AAG|GTGGGGGCTC...CTCTCCCCACCT/CCTCTCCCCACC...TCCAG|TTC 0 1 16.901
72997549 GT-AG 0 1.000000099473604e-05 1471 rna-XM_007520392.1 13705588 3 470735 472205 Erinaceus europaeus 9365 GAG|GTGGGTGCCT...CATCCCTTTCCC/CTGTGTCTGACG...GAAAG|GTA 1 1 31.064
72997550 GT-AG 0 1.000000099473604e-05 1105 rna-XM_007520392.1 13705588 4 472311 473415 Erinaceus europaeus 9365 AAG|GTAAGTCATG...GCCACCAGACCT/CCCCGGCTCACT...CCCAG|GCG 1 1 39.28
72997551 GT-AG 0 1.000000099473604e-05 721 rna-XM_007520392.1 13705588 5 473644 474364 Erinaceus europaeus 9365 AGG|GTGAGGCTGG...GGCTCCTGAGCA/GGGCTCCTGAGC...CCCAG|GCA 1 1 57.121
72997552 GT-AG 0 1.000000099473604e-05 317 rna-XM_007520392.1 13705588 6 474596 474912 Erinaceus europaeus 9365 CAG|GTGCTCCGCC...TATCCCTGGGCT/CGCCCGCTCACC...TGCAG|GCG 1 1 75.196
72997553 GT-AG 0 1.000000099473604e-05 72 rna-XM_007520392.1 13705588 7 475014 475085 Erinaceus europaeus 9365 CTG|GTGAGTGCCG...GAGCCGTGGATC/GTGGATCCCAGC...CGCAG|GTG 0 1 83.099

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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]);