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)

8 rows where transcript_id = 17265302

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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
92255184 GT-AG 0 1.000000099473604e-05 667 rna-XM_021445455.1 17265302 1 6929355 6930021 Herrania umbratica 108875 GAG|GTAAAATGAT...TTACCTTTAGAT/TGTTTCCCTACT...TGCAG|AAA 0 1 6.072
92255185 GT-AG 0 1.000000099473604e-05 108 rna-XM_021445455.1 17265302 2 6930094 6930201 Herrania umbratica 108875 GAG|GTTAGATGTC...TAAAGCTTAATT/TAAAGCTTAATT...TGCAG|AAG 0 1 7.529
92255186 GT-AG 0 6.81986434245634e-05 110 rna-XM_021445455.1 17265302 3 6930289 6930398 Herrania umbratica 108875 TTG|GTATAATGAA...TTGTACTTACAT/TATATATTTATT...TGCAG|GAT 0 1 9.29
92255187 GT-AG 0 1.000000099473604e-05 666 rna-XM_021445455.1 17265302 4 6930468 6931133 Herrania umbratica 108875 CAG|GTAAATATCT...AAATTCTTAGAA/TCTCTTTTGAAT...TTCAG|GAT 0 1 10.686
92255188 GT-AG 0 6.918686070242799e-05 1324 rna-XM_021445455.1 17265302 5 6933092 6934415 Herrania umbratica 108875 GGA|GTAAGTTCCA...TCTCCCTTTCTC/TTTTATGTGATA...TCAAG|GCA 2 1 50.314
92255189 GT-AG 0 1.3440696485978066e-05 807 rna-XM_021445455.1 17265302 6 6934624 6935430 Herrania umbratica 108875 ATG|GTACGTCTCG...GTAATCATATTG/ATACTGCTGACT...TTTAG|GAA 0 1 54.523
92255190 GT-AG 0 7.828438142161203e-05 620 rna-XM_021445455.1 17265302 7 6935926 6936545 Herrania umbratica 108875 CTG|GTAATTTCCA...ATTACCTTATAT/AATTACCTTATA...TCTAG|GTT 0 1 64.542
92255191 GT-AG 0 1.000000099473604e-05 90 rna-XM_021445455.1 17265302 8 6938199 6938288 Herrania umbratica 108875 CAG|GTTTGAATAA...TGCACTTTTCCT/CTGCAATTGAAA...TGTAG|ACT 0 1 97.996

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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]);