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 = 8322057

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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
44702078 GT-AG 0 1.000000099473604e-05 1137 rna-XM_006830739.1 8322057 1 52356186 52357322 Chrysochloris asiatica 185453 CAA|GTAGGACCAC...ATGGACTTGCCA/GCCTGTCCCACC...CTCAG|CAG 2 1 56.295
44702079 GT-AG 0 1.000000099473604e-05 325 rna-XM_006830739.1 8322057 2 52355737 52356061 Chrysochloris asiatica 185453 CAG|GTGAGACCGG...TAATTTTTAATG/TAATTTTTAATG...TGCAG|GAG 0 1 62.693
44702080 GT-AG 0 1.000000099473604e-05 3656 rna-XM_006830739.1 8322057 3 52352009 52355664 Chrysochloris asiatica 185453 GGA|GTGAGTACGC...GGGATTCTAGTG/CTAGTGCAGACG...TGCAG|AGT 0 1 66.409
44702081 GT-AG 0 1.000000099473604e-05 103 rna-XM_006830739.1 8322057 4 52351812 52351914 Chrysochloris asiatica 185453 GTG|GTGAGGACCC...CTGACCTTCCTG/TGGTGATTCACC...CACAG|TGG 1 1 71.259
44702082 GT-AG 0 1.000000099473604e-05 88 rna-XM_006830739.1 8322057 5 52351623 52351710 Chrysochloris asiatica 185453 CAG|GTGAGTGTGG...ATGGGCTTAACC/ATGGGCTTAACC...GGCAG|CAC 0 1 76.471
44702083 GT-AG 0 1.000000099473604e-05 103 rna-XM_006830739.1 8322057 6 52351298 52351400 Chrysochloris asiatica 185453 CCT|GTGAGTGGGC...AGGCCCTTCGTG/GGGTGGCTGACC...GACAG|TGG 0 1 87.926
44702084 GT-AG 0 1.000000099473604e-05 140 rna-XM_006830739.1 8322057 7 52350963 52351102 Chrysochloris asiatica 185453 CAC|GTAAGTGACT...GCTCCCCTGGTG/CCCCTGGTGACC...TGCAG|GTG 0 1 97.988

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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]);