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 = 11121879

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Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
61577436 GT-AG 0 1.000000099473604e-05 59 rna-XM_047063500.1 11121879 1 5662206 5662264 Dermatophagoides farinae 6954 AAG|GTAGAAAAAA...TCATTCATATTA/TTATCATTCATA...AATAG|ATG 1 1 2.367
61577437 GT-AG 0 1.000000099473604e-05 63 rna-XM_047063500.1 11121879 2 5661845 5661907 Dermatophagoides farinae 6954 AAG|GTTTGAAAAA...TGTTTCTAATCA/TTGTTTCTAATC...AACAG|AGA 2 1 4.46
61577438 GT-AG 0 1.000000099473604e-05 64 rna-XM_047063500.1 11121879 3 5658261 5658324 Dermatophagoides farinae 6954 CAG|GTATGAAATT...TGAGTTTGAATT/TTGAGTTTGAAT...TACAG|GTA 0 1 29.182
61577439 GT-AG 0 1.000000099473604e-05 63 rna-XM_047063500.1 11121879 6 5652297 5652359 Dermatophagoides farinae 6954 AAA|GTAAGTGAAT...TTGTTCTGAAAT/CATTTTTTCAAT...AATAG|AAA 0 1 70.607
61577440 GT-AG 0 0.000570032848475 195 rna-XM_047063500.1 11121879 7 5652014 5652208 Dermatophagoides farinae 6954 AAG|GTATGGTTGT...ATTATTTTGAAA/ATTATTTTGAAA...ATTAG|CTG 1 1 71.225
61577441 GT-AG 0 1.7056505852609855e-05 443 rna-XM_047063500.1 11121879 8 5651375 5651817 Dermatophagoides farinae 6954 TAC|GTAAGCGAAA...TTATCATTGACT/TTTTTTTTTATT...TATAG|TGA 2 1 72.601
61577442 GT-AG 0 6.239682104133006e-05 60 rna-XM_047063500.1 11121879 9 5649707 5649766 Dermatophagoides farinae 6954 AAC|GTAAGTCTGA...AGTTTTTTATCC/AAGTTTTTTATC...TCAAG|TGA 2 1 83.895
61577443 GT-AG 0 1.000000099473604e-05 61 rna-XM_047063500.1 11121879 10 5647791 5647851 Dermatophagoides farinae 6954 AAG|GTAAAGATAT...TTTTTTTTAATT/TTTTTTTTAATT...TTTAG|AAC 0 1 96.924

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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]);