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 = 3504107

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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
17295320 GT-AG 0 1.000000099473604e-05 10837 rna-XM_037147153.1 3504107 1 63055 73891 Artibeus jamaicensis 9417 AAG|GTGAGACATT...AATTCATTAACG/TAAAAATTCATT...TCCAG|GAG 1 1 0.69
17295321 GT-AG 0 1.000000099473604e-05 15445 rna-XM_037147153.1 3504107 2 73970 89414 Artibeus jamaicensis 9417 AAG|GTAAATGGGA...TTGCTCTTATGT/TTTGCTCTTATG...TTCAG|GTT 1 1 3.522
17295322 GT-AG 0 1.000000099473604e-05 787 rna-XM_037147153.1 3504107 3 89703 90489 Artibeus jamaicensis 9417 TTG|GTGAGTGAGG...TGTCCCTTTTTT/GAAGTATTAATA...TTTAG|GTC 1 1 13.98
17295323 GT-AG 0 1.000000099473604e-05 18608 rna-XM_037147153.1 3504107 4 90521 109128 Artibeus jamaicensis 9417 TCA|GTAAGTACCT...TTCCGCTGAGCT/GCTGAGCTTACA...CCCAG|AGA 2 1 15.105
17295324 GT-AG 0 1.000000099473604e-05 5643 rna-XM_037147153.1 3504107 5 109257 114899 Artibeus jamaicensis 9417 CAG|GTAGGAGGAT...ATCCCCCTAACA/ACAGGTTTCATG...CACAG|CGG 1 1 19.753
17295325 GT-AG 0 1.000000099473604e-05 1080 rna-XM_037147153.1 3504107 6 115215 116294 Artibeus jamaicensis 9417 GCT|GTGAGTCCCA...TTACTCTTGATT/TTACTCTTGATT...CTCAG|ACC 1 1 31.191
17295326 GT-AG 0 3.2486063168055544e-05 3473 rna-XM_037147153.1 3504107 7 116541 120013 Artibeus jamaicensis 9417 GTA|GTAAGTATTC...GAAGCCTTGCTG/AGTTTTCTGAGA...GGCAG|GTC 1 1 40.123
17295327 GT-AG 0 6.475121410666785e-05 1313 rna-XM_037147153.1 3504107 8 120217 121529 Artibeus jamaicensis 9417 CAG|GTCTACCAGC...TCTTCCTTCTCA/GAGAGTTTCACT...GGCAG|GCC 0 1 47.495

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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]);