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 = 25075804

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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
137882718 GT-AG 0 1.000000099473604e-05 548 rna-XM_020759032.1 25075804 1 256867 257414 Orbicella faveolata 48498 TGG|GTAAGTAGTG...CTTATCATAGCT/CAAGAACTTATC...AACAG|GTG 2 1 32.88
137882719 GT-AG 0 1.5168771330652772e-05 1482 rna-XM_020759032.1 25075804 2 257585 259066 Orbicella faveolata 48498 TTG|GTAAGCGGTG...CTTTCCATAAAT/TATTTTGTGAAT...CCCAG|ATC 1 1 41.44
137882720 GT-AG 0 1.000000099473604e-05 323 rna-XM_020759032.1 25075804 3 259440 259762 Orbicella faveolata 48498 CAG|GTTAGTGTGT...CGAGCCTTAAGA/CTATTATTTATC...CACAG|GAC 2 1 60.222
137882721 GT-AG 0 1.000000099473604e-05 885 rna-XM_020759032.1 25075804 4 259881 260765 Orbicella faveolata 48498 CGG|GTGAGATATA...ATTTCTTTAAGC/ATTTGTTTCATG...TTCAG|ATT 0 1 66.163
137882722 GT-AG 0 0.0003146675883272 1652 rna-XM_020759032.1 25075804 5 261087 262738 Orbicella faveolata 48498 GAG|GTAAGCTGGG...ATTTCTTTAATT/ATTTCTTTAATT...TGCAG|GTT 0 1 82.326
137882723 GT-AG 0 0.0011233826507766 958 rna-XM_020759032.1 25075804 6 262838 263795 Orbicella faveolata 48498 CAG|GTATTATTTT...GCGTCATTAGCA/ATCTTGTTGAAC...TGTAG|TAT 0 1 87.311
137882724 GT-AG 0 1.000000099473604e-05 314 rna-XM_020759032.1 25075804 7 263925 264238 Orbicella faveolata 48498 CAG|GTAAAGCCAA...GGAACTTTACTG/TTTACTGTGATT...CTTAG|GGA 0 1 93.807

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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]);