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 = 13705591

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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
72997569 GT-AG 0 1.000000099473604e-05 4569 rna-XM_007518558.2 13705591 1 11640042 11644610 Erinaceus europaeus 9365 CAG|GTGAGCCAGC...ATTCTCTTCTTT/GTTTGCATAACC...TCTAG|GTG 1 1 22.952
72997570 GT-AG 0 1.000000099473604e-05 194 rna-XM_007518558.2 13705591 2 11644678 11644871 Erinaceus europaeus 9365 TGA|GTAAGTAAAA...GTTTGTTTAACC/GTTTGTTTAACC...TCCAG|GCC 2 1 28.386
72997571 GT-AG 0 0.0010231585781939 2245 rna-XM_007518558.2 13705591 3 11645020 11647264 Erinaceus europaeus 9365 CTA|GTAAGCTCCC...ATTGCTTGAACT/AATCATTTTATT...TCAAG|ACG 0 1 40.389
72997572 GT-AG 0 1.000000099473604e-05 940 rna-XM_007518558.2 13705591 4 11647368 11648307 Erinaceus europaeus 9365 ATG|GTAAGCAAAA...TTGTCTTTGTTT/TTTGTTTTTGTT...TTTAG|GAG 1 1 48.743
72997573 GT-AG 0 3.341034385182042e-05 519 rna-XM_007518558.2 13705591 5 11648565 11649083 Erinaceus europaeus 9365 GCT|GTAAGCAGAG...TCTCTCTCGGCC/CTCTCTCTCTCT...ATTAG|GTG 0 1 69.586
72997574 GT-AG 0 1.000000099473604e-05 898 rna-XM_007518558.2 13705591 6 11649247 11650144 Erinaceus europaeus 9365 AAG|GTAAATGTCT...GATTTCTTAGAT/TTAGATCTGACT...TGCAG|CGC 1 1 82.806
72997575 GT-AG 0 1.000000099473604e-05 335 rna-XM_007518558.2 13705591 7 11650300 11650634 Erinaceus europaeus 9365 GAG|GTAAACAAAG...GATCATTTACTA/GGATCATTTACT...TGCAG|GTT 0 1 95.377

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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]);