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 = 1767264

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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
10060258 GT-AG 0 0.0004058951735252 163 AATE005512-RA 1767264 2 10978046 10978208 Anopheles atroparvus 41427 CTG|GTACGTTCCA...TTGCTTTTGAAT/TTGCTTTTGAAT...CACAG|AAT 0 1 10.668
10060259 GT-AG 0 1.2059184983771987e-05 276 AATE005512-RA 1767264 3 10978389 10978664 Anopheles atroparvus 41427 CAA|GTAAGCACAG...ATTTCCCTACTG/TCCATTTTCATC...TGCAG|CGT 0 1 15.072
10060260 GT-AG 0 8.52731144535554e-05 114 AATE005512-RA 1767264 4 10980174 10980287 Anopheles atroparvus 41427 AAC|GTAAGTTTAG...CAATCCTTTCTG/CTTTTGCGTACC...TGCAG|AAA 0 1 51.994
10060261 GT-AG 0 1.000000099473604e-05 80 AATE005512-RA 1767264 5 10981668 10981747 Anopheles atroparvus 41427 AAG|GTAGGTAGTT...CCACCTCTAACC/CCACCTCTAACC...TCCAG|CAA 0 1 85.76
10060262 GT-AG 0 1.000000099473604e-05 63 AATE005512-RA 1767264 6 10981987 10982049 Anopheles atroparvus 41427 CGA|GTAAGTAGCG...GCAACGTTACCG/GTGTTTCGCAAC...TCCAG|GGA 2 1 91.608
10060263 GT-AG 0 1.7563359986885595e-05 69 AATE005512-RA 1767264 7 10982198 10982266 Anopheles atroparvus 41427 ATC|GTAAGTCGTC...CTGTCTTTTTTT/GTTTGCTGTACT...TTCAG|AAT 0 1 95.229
10063600 GT-AG 0 1.000000099473604e-05 363 AATE005512-RA 1767264 1 10977454 10977816 Anopheles atroparvus 41427 AAT|GTAAGTGAGA...CGTTTCTTAAAT/CTCTCTCTCACT...TACAG|TGG   0 5.53

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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]);