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)

6 rows where transcript_id = 21930998

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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
118866883 GT-AG 0 4.787302043993128e-05 165 rna-XM_035016735.1 21930998 1 2680496 2680660 Mirounga leonina 9715 AAT|GTAAGTTGAT...ATTGTTTTATTC/TATTGTTTTATT...CTTAG|GCA 0 1 5.031
118866884 GT-AG 0 1.000000099473604e-05 8625 rna-XM_035016735.1 21930998 2 2671739 2680363 Mirounga leonina 9715 AAA|GTAAGTAAAT...AGTATCTTAGAG/GAGTATCTTAGA...TCCAG|ACA 0 1 18.868
118866885 GT-AG 0 1.337573725277414e-05 218 rna-XM_035016735.1 21930998 3 2671380 2671597 Mirounga leonina 9715 AAT|GTAAGTTGGA...TTTGTTTTGTTT/GGCTATTTCAGG...TATAG|GGT 0 1 33.648
118866886 GT-AG 0 1.915258931898494e-05 2740 rna-XM_035016735.1 21930998 4 2668538 2671277 Mirounga leonina 9715 GAG|GTACGTAAGA...CCTACCTTGAAC/ATTTTATTAATT...CTCAG|AAT 0 1 44.34
118866887 GT-AG 0 0.0047786333346608 1867 rna-XM_035016735.1 21930998 5 2666517 2668383 Mirounga leonina 9715 CAG|GTATGCCTTC...TTGTGTTTATTA/TTTGTGTTTATT...CTTAG|TTT 1 1 60.482
118866888 GT-AG 0 1.000000099473604e-05 297 rna-XM_035016735.1 21930998 6 2666053 2666349 Mirounga leonina 9715 TAT|GTGAGTTACG...CTCTTCTTGGTG/CCCCGGTTTATT...TTCAG|ACT 0 1 77.987

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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]);