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 = 2121824

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
11621362 GT-AG 0 1.000000099473604e-05 56 rna-XM_009823142.1 2121824 1 1320311 1320366 Aphanomyces astaci 112090 TGG|GTAAGTGTGT...GCCTCCCTATCG/TCGTCCATCATC...TGTAG|GAA 2 1 13.302
11621363 GT-AG 0 1.000000099473604e-05 132 rna-XM_009823142.1 2121824 2 1319457 1319588 Aphanomyces astaci 112090 CAG|GTAATATATA...ATGGTTTTACAT/TATATATTTACA...CATAG|GAT 1 1 36.222
11621364 GT-AG 0 0.003324584292033 548 rna-XM_009823142.1 2121824 3 1318791 1319338 Aphanomyces astaci 112090 TCG|GTATATATAT...GGTTCTTTTGCG/TATGACTTCAAT...CGTAG|CTG 2 1 39.968
11621365 GT-AG 0 1.000000099473604e-05 126 rna-XM_009823142.1 2121824 4 1318502 1318627 Aphanomyces astaci 112090 AAC|GTACGACAAC...AGTTCGTTGTAT/TTGGTGCTCAAG...TGTAG|CAA 0 1 45.143
11621366 GT-AG 0 0.0657904010605686 61 rna-XM_009823142.1 2121824 5 1318346 1318406 Aphanomyces astaci 112090 GCG|GTATGCTGTC...CTCTCTGTGACG/GTGTATGTGACG...TACAG|GGC 2 1 48.159
11621367 GT-AG 0 0.0082256339114282 60 rna-XM_009823142.1 2121824 6 1318149 1318208 Aphanomyces astaci 112090 AAA|GTACGCTATA...GTATCCTTGGTG/GCGACACTGATC...GTCAG|GCG 1 1 52.508
11621368 GC-AG 0 1.000000099473604e-05 43 rna-XM_009823142.1 2121824 7 1317904 1317946 Aphanomyces astaci 112090 CAG|GCAAGTCTTC...TCGGTTTGAACG/CTCGGTTTGAAC...TGTAG|TCT 2 1 58.921
11621369 GT-AG 0 1.000000099473604e-05 87 rna-XM_009823142.1 2121824 8 1317138 1317224 Aphanomyces astaci 112090 GAG|GTACAAAAAC...GGGGTATGAGTA/GATGAGCTGAAG...TGTAG|GAC 0 1 80.476

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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]);