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 = 7607360

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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
39979927 GT-AG 0 1.000000099473604e-05 6737 rna-gnl|WGS:VWPQ|CEUAER_R06498_mrna 7607360 1 1055693 1062429 Ceuthmochares aereus 1961834 GAG|GTAAGCAAAT...TAATTCTCACTG/CTAATTCTCACT...TACAG|GAC 0 1 15.038
39979928 GT-AG 0 1.000000099473604e-05 4123 rna-gnl|WGS:VWPQ|CEUAER_R06498_mrna 7607360 2 1062562 1066684 Ceuthmochares aereus 1961834 GAG|GTAAGTCTTG...TTCGCTTTGTCT/ACCGTGATGACT...TTAAG|TCC 0 1 31.579
39979929 GT-AG 0 1.000000099473604e-05 2037 rna-gnl|WGS:VWPQ|CEUAER_R06498_mrna 7607360 3 1066814 1068850 Ceuthmochares aereus 1961834 GAG|GTAAGTGAGT...TGTATTTTGATC/TGTATTTTGATC...TGCAG|TCC 0 1 47.744
39979930 GT-AG 0 1.000000099473604e-05 4600 rna-gnl|WGS:VWPQ|CEUAER_R06498_mrna 7607360 4 1068926 1073525 Ceuthmochares aereus 1961834 CAG|GTAAGAGCAG...TGTGTCTTAACT/TGTGTCTTAACT...TTCAG|GCG 0 1 57.143
39979931 GT-AG 0 1.000000099473604e-05 502 rna-gnl|WGS:VWPQ|CEUAER_R06498_mrna 7607360 5 1073568 1074069 Ceuthmochares aereus 1961834 GAC|GTGAGTCTTG...TAGTTCTAATTT/TTAGTTCTAATT...TGCAG|TTG 0 1 62.406
39979932 GT-AG 0 1.992484499152442e-05 1739 rna-gnl|WGS:VWPQ|CEUAER_R06498_mrna 7607360 6 1074146 1075884 Ceuthmochares aereus 1961834 CTG|GTACGTACCC...TTGCCCTTTGTG/ACTGGTGTAACA...AATAG|GAC 1 1 71.93
39979933 GT-AG 0 1.000000099473604e-05 7466 rna-gnl|WGS:VWPQ|CEUAER_R06498_mrna 7607360 7 1075938 1083403 Ceuthmochares aereus 1961834 GAT|GTAAGTGGAC...GTGTCTGTGACA/ACTAATCTCAGT...TCCAG|TTA 0 1 78.571

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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]);