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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)

12 rows where transcript_id = 2279599

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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
12239779 GT-AG 0 1.556336446573889e-05 15308 rna-XM_027997653.1 2279599 1 2558410 2573717 Aphis gossypii 80765 ATG|GTAATTTAAT...TTTTTGTTATTT/TTTTTTGTTATT...TTCAG|ACA 0 1 0.123
12239780 GT-AG 0 0.0001368745879696 8049 rna-XM_027997653.1 2279599 2 2550270 2558318 Aphis gossypii 80765 AAA|GTAAGTTTTA...ATTTTTTTGTCA/AAAACTTTTATT...TATAG|CAA 1 1 3.868
12239781 GT-AG 0 1.000000099473604e-05 1671 rna-XM_027997653.1 2279599 3 2548366 2550036 Aphis gossypii 80765 AAG|GTACGTCAAT...AAATTCCTAACA/AAATTCCTAACA...TTCAG|ATT 0 1 13.457
12239782 GT-AG 0 2.478091905151285e-05 369 rna-XM_027997653.1 2279599 5 2546379 2546747 Aphis gossypii 80765 GAG|GTAATTATAG...TTTTTTTTATCT/TTTTTTTTTATC...TTTAG|ATT 0 1 25.062
12239783 GT-AG 0 1.1684532363594689e-05 61 rna-XM_027997653.1 2279599 6 2546079 2546139 Aphis gossypii 80765 GAG|GTTTGTATTA...GGTCATTTATTC/AGGTCATTTATT...AATAG|AGA 2 1 34.897
12239784 GT-AG 0 6.627403157565154e-05 66 rna-XM_027997653.1 2279599 7 2545822 2545887 Aphis gossypii 80765 ATG|GTAAGCATTT...TACATTTTAAAT/ATAATACTAATC...TTTAG|TTC 1 1 42.757
12239785 GT-AG 0 6.910107066417873e-05 90 rna-XM_027997653.1 2279599 8 2545514 2545603 Aphis gossypii 80765 AAA|GTAATTATAA...ATATCCTTACTG/TTTTTTTTTAAT...TAAAG|GTT 0 1 51.728
12239786 GT-AG 0 1.000000099473604e-05 56 rna-XM_027997653.1 2279599 9 2545162 2545217 Aphis gossypii 80765 TGG|GTAAGTAATG...AATATTTTAATT/AATATTTTAATT...TTTAG|GTA 2 1 63.909
12239787 GT-AG 0 1.2056305619663252e-05 72 rna-XM_027997653.1 2279599 10 2544942 2545013 Aphis gossypii 80765 GTC|GTAAGTAAAA...TAAGTTTTAATT/TAAGTTTTAATT...TATAG|GAC 0 1 70.0
12239788 GT-AG 0 1.000000099473604e-05 70 rna-XM_027997653.1 2279599 11 2544686 2544755 Aphis gossypii 80765 GAA|GTGCGTATAC...TTGATATTAACC/TTGATATTAACC...CTCAG|GTG 0 1 77.654
12239789 GT-AG 0 0.0001108908410194 91 rna-XM_027997653.1 2279599 12 2544472 2544562 Aphis gossypii 80765 AAG|GTATAGATAA...CTGGTCTTAAAC/CTTAAACTAATC...TGTAG|ATG 0 1 82.716
12239790 GT-AG 0 0.0004720104780277 574 rna-XM_027997653.1 2279599 13 2543696 2544269 Aphis gossypii 80765 ACC|GTAATTATAT...ATATTTTTATTT/TTTTATTTTATT...TTTAG|CGA 1 1 91.029

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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]);
Powered by Datasette · Queries took 22.674ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)