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 = 25075716

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
137882272 GT-AG 0 1.000000099473604e-05 4212 rna-XM_020749770.1 25075716 2 159866 164077 Orbicella faveolata 48498 GTG|GTAGGTAACA...TTGATCTTGCTG/GAGAATTTGATC...CGTAG|CTA 1 1 26.895
137882273 GT-AG 0 0.0891163986505341 2461 rna-XM_020749770.1 25075716 3 157261 159721 Orbicella faveolata 48498 CAG|GTATCGTTTA...GTAATCATATTC/AATGTAATCATA...TTCAG|ATG 1 1 33.131
137882274 GT-AG 0 1.000000099473604e-05 613 rna-XM_020749770.1 25075716 4 156342 156954 Orbicella faveolata 48498 TTG|GTGGGTAACG...AAATTCGTGATT/AAATTCGTGATT...TTCAG|GTG 1 1 46.384
137882275 GT-AG 0 0.0002200424368835 806 rna-XM_020749770.1 25075716 5 155432 156237 Orbicella faveolata 48498 ACG|GTAAGCATTC...TTTCCCCTAATA/TTTCCCCTAATA...CACAG|GTT 0 1 50.888
137882276 GT-AG 0 1.000000099473604e-05 640 rna-XM_020749770.1 25075716 6 154691 155330 Orbicella faveolata 48498 CTG|GTGAGATAAG...CTCGGTTTGACT/CTCGGTTTGACT...CGCAG|GTC 2 1 55.262
137882277 GT-AG 0 5.697190352310367e-05 471 rna-XM_020749770.1 25075716 7 153897 154367 Orbicella faveolata 48498 GAG|GTAAACAGTT...CCTTTTTTATTC/CCCTTTTTTATT...TCCAG|AGA 1 1 69.251
137882278 GT-AG 0 1.000000099473604e-05 1885 rna-XM_020749770.1 25075716 8 151634 153518 Orbicella faveolata 48498 AAG|GTAGGGTTGT...TACACATTAATT/CTTTTTCTCACT...CCCAG|GTG 1 1 85.621
137882409 GT-AG 0 1.000000099473604e-05 1355 rna-XM_020749770.1 25075716 1 164506 165860 Orbicella faveolata 48498 CAG|GTAAGATGTT...ATTTTTTTCATT/ATTTTTTTCATT...CACAG|AGT   0 22.694

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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]);