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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)

6 rows where transcript_id = 34480533

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
193751289 GT-AG 0 5.577472981209274e-05 59 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA451486 34480533 2 4399417 4399475 Syncephalastrum racemosum 13706 CAG|GTAAACGTGT...TTTGCTTTAGAT/TAGATGCTCATC...ATAAG|ATT 2 1 6.903
193751290 GT-AG 0 1.30210470374297e-05 56 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA451486 34480533 3 4399241 4399296 Syncephalastrum racemosum 13706 AGG|GTAAATCTTG...TCATCCTTCTCC/TCACGTTTCATC...TTTAG|GGA 2 1 10.126
193751291 GT-AG 0 0.0001013371391426 63 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA451486 34480533 4 4399066 4399128 Syncephalastrum racemosum 13706 GAA|GTATGGATAG...GTCTATTTAAAG/GTGCGACTGATA...AGTAG|GTG 0 1 13.135
193751292 GT-AG 0 4.930132666893928e-05 49 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA451486 34480533 5 4398762 4398810 Syncephalastrum racemosum 13706 ATT|GTAAGCACAT...TCTTTTTTGTCT/TGTCCCCTCATT...TCTAG|GCA 0 1 19.984
193751293 GT-AG 0 1.000000099473604e-05 60 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA451486 34480533 6 4398396 4398455 Syncephalastrum racemosum 13706 AAG|GTAAGACAAA...CGATTCTCAGAC/ATGGGACTCACA...ACTAG|ATC 0 1 28.203
193757519 GT-AG 0 1.000000099473604e-05 48 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA451486 34480533 1 4399707 4399754 Syncephalastrum racemosum 13706 CTG|GTGCGTATTC...TCTCTGCTGACC/TCTCTGCTGACC...GACAG|TCC   0 1.37

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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]);
Powered by Datasette · Queries took 27.395ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)