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 = 38228156

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
211079968 GT-AG 0 0.0005130721572482 261 rna-XM_046983343.1 38228156 1 7329831 7330091 Xenia sp. carnegie-2017 2897299 AAT|GTAAGCTCAA...TAATCATTATTT/ATTATTTTCATC...TTAAG|ATA 1 1 2.398
211079969 GT-AG 0 1.000000099473604e-05 445 rna-XM_046983343.1 38228156 2 7328171 7328615 Xenia sp. carnegie-2017 2897299 AAG|GTGAATTACA...AATTTTTTGATA/AATTTTTTGATA...TACAG|AAT 1 1 44.022
211079970 GT-AG 0 1.000000099473604e-05 262 rna-XM_046983343.1 38228156 3 7327576 7327837 Xenia sp. carnegie-2017 2897299 TAG|GTCAGCATAA...ATTTTCATATCC/ACTATTTTCATA...TTAAG|GTG 1 1 55.43
211079971 GT-AG 0 1.3525829076597407e-05 86 rna-XM_046983343.1 38228156 4 7327250 7327335 Xenia sp. carnegie-2017 2897299 ACG|GTAATTTAAC...CATTTATTATCG/CAGTCATTTATT...CGTAG|TTT 1 1 63.652
211079972 GT-AG 0 1.000000099473604e-05 340 rna-XM_046983343.1 38228156 5 7326547 7326886 Xenia sp. carnegie-2017 2897299 AAA|GTAAGTAAAG...AATTCTATATCT/TATCAAATCATA...CTTAG|AAA 1 1 76.088
211079973 GT-AG 0 1.000000099473604e-05 363 rna-XM_046983343.1 38228156 6 7325955 7326317 Xenia sp. carnegie-2017 2897299 TGG|GTAAGAAGAA...AATTTATTAGAG/ACGTAAATTATT...TTCAG|TTG 2 1 83.933
211079974 GT-AG 0 0.0046722465559014 719 rna-XM_046983343.1 38228156 7 7324949 7325667 Xenia sp. carnegie-2017 2897299 AAG|GTATACATAA...ATTTTATTACCT/ACCTATTTTATT...TATAG|GTG 1 1 93.765

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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]);