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)

7 rows where transcript_id = 26834566

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Suggested facets: dinucleotide_pair, 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
148958075 GT-AG 0 1.000000099473604e-05 4776 rna-XM_027359843.1 26834566 1 453247 458022 Penaeus vannamei 6689 CAG|GTAAGGGGAA...AAAGTTGTAATC/TGAAAACTCAGT...TTTAG|GTC 1 1 8.862
148958076 GT-AG 0 1.000000099473604e-05 2742 rna-XM_027359843.1 26834566 2 450362 453103 Penaeus vannamei 6689 CAG|GTAATGATTT...TACTGTTTACTG/CTACTGTTTACT...CACAG|GTT 0 1 16.361
148958077 GT-AG 0 1.000000099473604e-05 4461 rna-XM_027359843.1 26834566 3 445797 450257 Penaeus vannamei 6689 CAA|GTAAGATTTG...CCTGCCATATTT/ATATTTTTCAAG...TGCAG|ATT 2 1 21.814
148958078 GT-AG 0 1.000000099473604e-05 5139 rna-XM_027359843.1 26834566 4 440561 445699 Penaeus vannamei 6689 CAG|GTAAGGCTCA...TATTTTTTTTTC/AAGATGTTTATA...CACAG|GGT 0 1 26.901
148958079 GT-AG 0 1.000000099473604e-05 819 rna-XM_027359843.1 26834566 5 439412 440230 Penaeus vannamei 6689 AAA|GTAAGTAAAC...CTGACCCTAATT/TGATATCTGACC...TCAAG|TTC 0 1 44.206
148958080 AG-AG 0 0.0013821120655392 801 rna-XM_027359843.1 26834566 6 438400 439200 Penaeus vannamei 6689 CCA|AGTCACAGTC...TTTTTTTTATTT/TTTTTTTTTATT...TTTAG|ATG 1 1 55.27
148958118 GT-AG 0 1.0592084920865634e-05 392 rna-XM_027359843.1 26834566 7 437910 438301 Penaeus vannamei 6689 AGG|GTAAGTAGCA...TTGCCCTTATCA/GTTGCCCTTATC...TTCAG|ATG   0 60.409

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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]);