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 = 37986812

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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
209727240 GT-AG 0 1.000000099473604e-05 784 rna-XM_047309237.1 37986812 1 58617 59400 Vigna umbellata 87088 TAA|GTGAGCACTT...TTTTCCTCTTCG/GCCCTGCTAAGA...CTCAG|TGT 2 1 16.226
209727241 GT-AG 0 0.0026066973368774 98 rna-XM_047309237.1 37986812 2 58435 58532 Vigna umbellata 87088 CAA|GTAACTAACT...GATCTTTTATTG/CGGATGTTCATT...AACAG|GTT 2 1 31.041
209727242 GT-AG 0 1.000000099473604e-05 112 rna-XM_047309237.1 37986812 3 58262 58373 Vigna umbellata 87088 CAG|GTTAAATTAA...TTCTTGTTAAAT/AATATACTGATA...TTTAG|AAC 0 1 41.799
209727243 GT-AG 0 1.000000099473604e-05 122 rna-XM_047309237.1 37986812 4 58052 58173 Vigna umbellata 87088 ATG|GTGAGCTTGC...TTTCCTCTATTT/TATATGCTGACT...TTCAG|CAA 1 1 57.319
209727244 GT-AG 0 2.7849755341926563e-05 87 rna-XM_047309237.1 37986812 5 57903 57989 Vigna umbellata 87088 AGT|GTAATGCGTC...TCTCTCTTAATT/TATTTTTTCATG...AACAG|GTG 0 1 68.254
209727245 GT-AG 0 1.000000099473604e-05 306 rna-XM_047309237.1 37986812 6 57531 57836 Vigna umbellata 87088 CAG|GTGAAACTCA...TATGCGTTAAAT/ATGTGTTTTATG...TACAG|GTT 0 1 79.894
209727246 GT-AG 0 0.0510191159839444 120 rna-XM_047309237.1 37986812 7 57347 57466 Vigna umbellata 87088 ACG|GTATGTTTTG...TCTCCCATGACT/CTTCTATTTACA...TGCAG|GTA 1 1 91.182

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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]);