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 = 7208809

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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
37777292 GT-AG 0 2.4712489233583268e-05 89 rna-gnl|WGS:VZRE|CEPORN_R02658_mrna 7208809 1 20406 20494 Cephalopterus ornatus 114276 GGG|GTATGGAGCA...GCCCCCTTCAAA/CCCCTTCAAACC...CGCAG|CTG 0 1 6.13
37777293 GT-AG 0 1.000000099473604e-05 88 rna-gnl|WGS:VZRE|CEPORN_R02658_mrna 7208809 2 20630 20717 Cephalopterus ornatus 114276 AAG|GTGCGGACCC...GTCCCTGTATCC/GTTGTTCTCAGG...CGCAG|TCC 0 1 23.372
37777294 GT-AG 0 1.000000099473604e-05 82 rna-gnl|WGS:VZRE|CEPORN_R02658_mrna 7208809 3 20833 20914 Cephalopterus ornatus 114276 ATG|GTGAGTGCCA...GCTGCCTTGCTG/GCCTTGCTGAGC...GCCAG|GCG 1 1 38.059
37777295 GT-AG 0 1.000000099473604e-05 185 rna-gnl|WGS:VZRE|CEPORN_R02658_mrna 7208809 4 21015 21199 Cephalopterus ornatus 114276 ACG|GTGAGGGGGG...CCCACCTCACCT/GGGGTGCTCAGC...CCCAG|CGT 2 1 50.83
37777296 GT-AG 0 1.000000099473604e-05 83 rna-gnl|WGS:VZRE|CEPORN_R02658_mrna 7208809 5 21310 21392 Cephalopterus ornatus 114276 CAG|GTGAGTCCTG...GTGCCCTCACAG/GGTGCCCTCACA...ATCAG|AGC 1 1 64.879
37777297 GT-AG 0 1.000000099473604e-05 72 rna-gnl|WGS:VZRE|CEPORN_R02658_mrna 7208809 6 21500 21571 Cephalopterus ornatus 114276 CGG|GTGAGTCCCT...CCCCCCTCACCC/GCCCCCCTCACC...CCCAG|GGG 0 1 78.544
37777298 GT-AG 0 1.000000099473604e-05 80 rna-gnl|WGS:VZRE|CEPORN_R02658_mrna 7208809 7 21637 21716 Cephalopterus ornatus 114276 CAG|GTAGGAGTGG...CAACCCTCAGCC/GCAACCCTCAGC...CCCAG|GCC 2 1 86.845

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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]);