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)

9 rows where transcript_id = 29376501

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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
163593315 GT-AG 0 0.0004230996846964 235 rna-XM_008232679.2 29376501 1 11702043 11702277 Prunus mume 102107 AAG|GTCTGCTCTC...ATATACTTAAAA/TATATACTTAAA...TGCAG|GTG 1 1 3.478
163593316 GT-AG 0 9.65643074153735e-05 641 rna-XM_008232679.2 29376501 2 11699722 11700362 Prunus mume 102107 CAG|GTTTGTTCCT...TAACTCTTGACA/ACTTATCTCATT...TCTAG|GGG 1 1 44.624
163593317 GT-AG 0 1.000000099473604e-05 146 rna-XM_008232679.2 29376501 3 11699316 11699461 Prunus mume 102107 GTG|GTAATTGCAT...TTCTTCTTTGTT/AGTTTACTCATC...TATAG|GTT 0 1 50.992
163593318 GT-AG 0 1.000000099473604e-05 261 rna-XM_008232679.2 29376501 4 11698845 11699105 Prunus mume 102107 GAG|GTACTTGACA...CATCCACTAACT/CATCCACTAACT...TTCAG|ATC 0 1 56.135
163593319 GT-AG 0 1.000000099473604e-05 851 rna-XM_008232679.2 29376501 5 11697775 11698625 Prunus mume 102107 CCT|GTGAGTATTT...GTCTCTTTTGCA/AGTTGATTTACT...TTTAG|GTC 0 1 61.499
163593320 GT-AG 0 0.0320676335917519 772 rna-XM_008232679.2 29376501 6 11696037 11696808 Prunus mume 102107 CAG|GTATTCTGTT...TCATTCTTCTTT/TCTTCTTTCAAA...TGCAG|GCA 0 1 85.158
163593321 GC-AG 0 1.000000099473604e-05 192 rna-XM_008232679.2 29376501 7 11695749 11695940 Prunus mume 102107 GAG|GCAAGTTTGT...TATCATTTAAAA/TTTACTATCATT...CACAG|GTG 0 1 87.509
163593322 GT-AG 0 1.000000099473604e-05 450 rna-XM_008232679.2 29376501 8 11695200 11695649 Prunus mume 102107 CAG|GTAAGCATGA...TATGGTTTAATA/TATGGTTTAATA...TGCAG|ATA 0 1 89.934
163593323 GT-AG 0 0.0024891512731641 1025 rna-XM_008232679.2 29376501 9 11693985 11695009 Prunus mume 102107 AAG|GTATGCCATT...GAGCCGTTAGCA/TAGCAATTCAAA...TGCAG|CTT 1 1 94.587

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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]);