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 = 9887086

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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
54166924 GT-AG 0 0.0890350532274926 53744 rna-XM_039341453.1 9887086 1 6097590 6151333 Crotalus tigris 88082 CAA|GTAACTATTT...TTTTTTTTGACA/TTTATGCTCATT...TCCAG|GTA 1 1 57.461
54166925 GT-AG 0 0.0013980328672362 9812 rna-XM_039341453.1 9887086 2 6087623 6097434 Crotalus tigris 88082 AAG|GTATTTATTA...ATCTCTCTGATT/ATCTCTCTGATT...TTTAG|GTT 0 1 62.612
54166926 GT-AG 0 0.000487877926086 9692 rna-XM_039341453.1 9887086 3 6077786 6087477 Crotalus tigris 88082 TTG|GTACGTTTAG...TTCATCTTCACT/TTCATCTTCACT...TCCAG|GGA 1 1 67.431
54166927 GT-AG 0 0.00146874900372 2115 rna-XM_039341453.1 9887086 4 6075464 6077578 Crotalus tigris 88082 TTG|GTATGTTGGA...TTTGTCTTTTTT/CTCTGATTCACG...TATAG|GTC 1 1 74.31
54166928 GT-AG 0 1.0333341340118111e-05 2801 rna-XM_039341453.1 9887086 5 6072448 6075248 Crotalus tigris 88082 CAG|GTAAATCTAA...AATTTTTTAAAT/AATTTTTTAAAT...CTCAG|ATG 0 1 81.456
54166929 GT-AG 0 8.933716637264557e-05 1949 rna-XM_039341453.1 9887086 6 6070368 6072316 Crotalus tigris 88082 TAG|GTAAATATTA...TTTTTTTTAATC/TTTTTTTTAATC...TGCAG|CTT 2 1 85.809
54166930 GT-AG 0 0.1320786420303896 874 rna-XM_039341453.1 9887086 7 6069366 6070239 Crotalus tigris 88082 CAG|GTACCCTAAT...GTATTCTAAATA/CGTATTCTAAAT...TTCAG|GTC 1 1 90.063
54166931 GT-AG 0 1.000000099473604e-05 9398 rna-XM_039341453.1 9887086 8 6059850 6069247 Crotalus tigris 88082 CAG|GTAAGATGAA...TTTCTTCTAATT/TTTCTTCTAATT...TCTAG|ATA 2 1 93.985

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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]);