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 = 11121945

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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
61577977 GT-AG 0 1.000000099473604e-05 74 rna-XM_047062525.1 11121945 1 369626 369699 Dermatophagoides farinae 6954 ATG|GTAAATAAAT...TGTTTTTTGTTT/CTAAATTTCATT...TCCAG|CTC 1 1 6.117
61577978 GT-AG 0 0.0057139787142678 95 rna-XM_047062525.1 11121945 2 369874 369968 Dermatophagoides farinae 6954 CCG|GTATGTATTT...TGAATTTTATCA/AATTTTATCATT...TATAG|AAA 1 1 9.141
61577979 GT-AG 0 1.000000099473604e-05 118 rna-XM_047062525.1 11121945 3 370035 370152 Dermatophagoides farinae 6954 CAA|GTAAGAATCA...AATGTTTTATTT/TTTATTTTCATT...TTTAG|ATT 1 1 10.288
61577980 GT-AG 0 1.107529564152932e-05 60 rna-XM_047062525.1 11121945 4 373579 373638 Dermatophagoides farinae 6954 CTG|GTAATTATTT...AAATTTTTCATT/AAATTTTTCATT...AATAG|ATT 1 1 69.83
61577981 GT-AG 0 1.000000099473604e-05 69 rna-XM_047062525.1 11121945 5 374856 374924 Dermatophagoides farinae 6954 AAT|GTGAGTAGAA...ATCGTTTTATTT/ATTTTTTTTACA...AACAG|AAA 0 1 90.98
61577982 GT-AG 0 1.4595774787531157e-05 53 rna-XM_047062525.1 11121945 6 375124 375176 Dermatophagoides farinae 6954 CTG|GTAATTTGAT...ATATGTTTAATT/ATATGTTTAATT...CTTAG|CAT 1 1 94.439
61577983 TT-AG 0 1.000000099473604e-05 767 rna-XM_047062525.1 11121945 7 375468 376234 Dermatophagoides farinae 6954 CAA|TTAATTCAAC...TATATTTTATAT/TTATATTTTATA...AATAG|GTG 1 1 99.496

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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]);