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 = 9129091

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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
49484770 GT-AG 0 1.000000099473604e-05 215 rna-XM_012728524.1 9129091 1 9913914 9914128 Condylura cristata 143302 ATG|GTGAAAGAAT...TATCTCTTACTT/TTATCTCTTACT...TGTAG|AGA 0 1 0.506
49484771 GT-AG 0 0.0007466857629929 4255 rna-XM_012728524.1 9129091 2 9909510 9913764 Condylura cristata 143302 GAG|GTAGGCTTTA...CTACTCTTGCTC/ACATCTATTATA...CTCAG|GGA 2 1 5.527
49484772 GT-AG 0 8.623618042247349e-05 1573 rna-XM_012728524.1 9129091 3 9907297 9908869 Condylura cristata 143302 CAG|GTCTGCGTAT...GATTCTTTATAA/ATTTTTCTGAGA...TTCAG|CTT 0 1 27.098
49484773 GT-AG 0 1.000000099473604e-05 1389 rna-XM_012728524.1 9129091 4 9904462 9905850 Condylura cristata 143302 AAG|GTGAATATTA...GAACTCTTATTA/AGAACTCTTATT...TTCAG|GTT 0 1 75.834
49484774 GT-AG 0 0.0118197529523407 3476 rna-XM_012728524.1 9129091 5 9900886 9904361 Condylura cristata 143302 AAG|GTATCAGTCA...TGCTTTTTGAAT/TTGTGTTTAACT...CTCAG|GGG 1 1 79.205
49484775 GT-AG 0 1.6219202402749975e-05 4411 rna-XM_012728524.1 9129091 6 9896179 9900589 Condylura cristata 143302 AAG|GTAACAACTT...AATTCCTTGCAT/TTCTCTCTAAAT...TCTAG|GAA 0 1 89.181
49484776 GT-AG 0 1.5705380775559757e-05 455 rna-XM_012728524.1 9129091 7 9895520 9895974 Condylura cristata 143302 CAG|GTAGGTATCT...AAATTTTTAGTG/TAAATTTTTAGT...AATAG|ACA 0 1 96.057
49484777 GT-AG 0 0.0001108990585754 310 rna-XM_012728524.1 9129091 8 9895110 9895419 Condylura cristata 143302 AAG|GTATGGCTCC...GTTTTTTTGAAA/AACTTTGTCACT...TCCAG|GTA 1 1 99.427

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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]);