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 = 38015499

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Suggested facets: in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
209850031 GT-AG 0 0.0012879184672886 3161 rna-XM_028074263.1 38015499 2 34188377 34191537 Vigna unguiculata 3917 CAG|GTATTTCGTC...ACTTTCTTTATC/ACTTTCTTTATC...CAAAG|ATT 0 1 12.655
209850032 GT-AG 0 6.271208621670055e-05 105 rna-XM_028074263.1 38015499 3 34191625 34191729 Vigna unguiculata 3917 ATG|GTAATATTCT...AACTTTTTGACT/AACTTTTTGACT...GCAAG|ATC 0 1 14.764
209850033 GT-AG 0 4.362135350605854e-05 72 rna-XM_028074263.1 38015499 4 34191841 34191912 Vigna unguiculata 3917 CTT|GTAAGTATCA...TCTCTTTTGAAC/ACTATACTCATC...TCTAG|GAC 0 1 17.455
209850034 GT-AG 0 0.0020881354652926 1481 rna-XM_028074263.1 38015499 5 34192126 34193606 Vigna unguiculata 3917 CAG|GTATTATTTC...TTTTTCTTTTCT/CTTTATGTCAAT...TACAG|TGG 0 1 22.618
209850035 GT-AG 0 1.356404132727119 118 rna-XM_028074263.1 38015499 6 34193793 34193910 Vigna unguiculata 3917 CAG|GTCTCCTTTC...CTGTTCTGAATG/TCTGTTCTGAAT...TGCAG|GTC 0 1 27.127
209850036 GT-AG 0 2.403157406605145e-05 125 rna-XM_028074263.1 38015499 8 34196559 34196683 Vigna unguiculata 3917 CAG|GTAAATTATC...ATTTTTTTACTT/TATTTTTTTACT...AGCAG|GGC 0 1 91.273
209860031 GT-AG 0 1.000000099473604e-05 551 rna-XM_028074263.1 38015499 1 34187138 34187688 Vigna unguiculata 3917 AAG|GTAAATATTT...GTTACATTGATC/TTGGTGCTAATG...TGCAG|GAT   0 6.182

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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]);