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 = 33313364

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
186657447 GT-AG 0 0.0052215756172089 380 rna-XM_010320983.3 33313364 2 63612769 63613148 Solanum lycopersicum 4081 CAT|GTATGTTACT...CATTTTTTGTTG/GCGATGCTAAAT...ATTAG|GAA 0 1 36.535
186657448 GT-AG 0 0.0136269888549004 1674 rna-XM_010320983.3 33313364 3 63613380 63615053 Solanum lycopersicum 4081 ACA|GTATGTATCC...GTTGGTTTAATT/GTTTAATTAATT...TCCAG|GGT 0 1 42.768
186657449 GT-AG 0 1.000000099473604e-05 542 rna-XM_010320983.3 33313364 4 63615123 63615664 Solanum lycopersicum 4081 GAG|GTAAGTGTTC...TCCTCTCTATTC/TCTCTATTCATT...TGCAG|ATT 0 1 44.63
186657450 GT-AG 0 1.000000099473604e-05 78 rna-XM_010320983.3 33313364 5 63615935 63616012 Solanum lycopersicum 4081 ACG|GTGAGTTGAT...ACTCTTTTGATT/ACTCTTTTGATT...TTCAG|TGC 0 1 51.916
186657451 GT-AG 0 1.000000099473604e-05 657 rna-XM_010320983.3 33313364 6 63616364 63617020 Solanum lycopersicum 4081 CAG|GTAATTTGAA...CCTATTTTAAAT/CCTATTTTAAAT...TGCAG|TAC 0 1 61.387
186657452 GT-AG 0 1.000000099473604e-05 166 rna-XM_010320983.3 33313364 7 63617299 63617464 Solanum lycopersicum 4081 AAG|GTGAGGACCT...ATCATTTTAAGT/TAAGTTCTCACT...TGCAG|AGT 2 1 68.888
186670872 GT-AG 0 1.000000099473604e-05 668 rna-XM_010320983.3 33313364 1 63610890 63611557 Solanum lycopersicum 4081 GAG|GTTTGATTTC...GTTGTTATGATA/GTTGTTATGATA...CTTAG|GTA   0 4.155

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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]);