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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 = 2279595

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Suggested facets: dinucleotide_pair, score, length, 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
12239734 GT-AG 0 1.000000099473604e-05 840 rna-XM_027987341.1 2279595 2 4361117 4361956 Aphis gossypii 80765 CAG|GTAAGCACTA...TATATTTTATTA/ATATATTTTATT...TTTAG|GTG 2 1 30.649
12239735 GT-AG 0 2.6391671852019173e-05 72 rna-XM_027987341.1 2279595 3 4360855 4360926 Aphis gossypii 80765 GAG|GTAAATTAAT...ATACTTTTAATT/TTTATATTCATT...TACAG|ATT 0 1 36.696
12239736 GT-AG 0 1.000000099473604e-05 98 rna-XM_027987341.1 2279595 4 4360569 4360666 Aphis gossypii 80765 GAG|GTAAAATGAT...ATGACTTTAAAA/TATATTATGACT...ATTAG|ACA 2 1 42.68
12239737 GT-AG 0 4.359900542982804e-05 73 rna-XM_027987341.1 2279595 5 4360360 4360432 Aphis gossypii 80765 AAA|GTAAATATAA...TTATATTTAACA/TTTTTTATAATT...ATTAG|AAA 0 1 47.008
12239738 GT-AG 0 0.6620847176697721 70 rna-XM_027987341.1 2279595 6 4360099 4360168 Aphis gossypii 80765 AAA|GTATGTTTTT...TTTTCTTTATTT/ATTTTCTTTATT...TTTAG|CTG 2 1 53.087
12239739 GT-AG 0 0.0001299523169504 63 rna-XM_027987341.1 2279595 7 4359498 4359560 Aphis gossypii 80765 AAT|GTAATATTAT...TTTTTCTTAAAC/ATTAATCTAATT...TTTAG|GTT 0 1 70.21
12239740 GT-AG 0 0.0004766906529653 284 rna-XM_027987341.1 2279595 8 4359101 4359384 Aphis gossypii 80765 TAT|GTAAGTTGTT...TTAACCTTATTA/ATTAACCTTATT...TCTAG|AAT 2 1 73.806
12239741 GT-AG 0 1.798150961722291e-05 114 rna-XM_027987341.1 2279595 9 4358799 4358912 Aphis gossypii 80765 TAG|GTAAACAATT...TATTCATTATTG/TATCTATTCATT...TGTAG|AAC 1 1 79.79
12239742 GT-AG 0 1.000000099473604e-05 63 rna-XM_027987341.1 2279595 10 4358629 4358691 Aphis gossypii 80765 AAG|GTAAAAAAAA...CTAGTATTATCA/TAAAAATTAACT...TTTAG|ACG 0 1 83.195
12239743 GT-AG 0 1.000000099473604e-05 105 rna-XM_027987341.1 2279595 11 4358380 4358484 Aphis gossypii 80765 GAT|GTGCGTAATT...ATACATTTATCT/GATACATTTATC...TGAAG|GTA 0 1 87.778
12239744 GC-AG 0 1.000000099473604e-05 70 rna-XM_027987341.1 2279595 12 4358149 4358218 Aphis gossypii 80765 TAG|GCAAGTTAAA...ATTGTTTTATTA/GTTTTATTAATT...ATTAG|AAG 2 1 92.903
12240580 GT-AG 0 1.000000099473604e-05 1689 rna-XM_027987341.1 2279595 1 4362319 4364007 Aphis gossypii 80765 AAA|GTGAGTTTTC...AAAATTTTAGAT/AAAGGTTTAATA...TTTAG|ATG   0 19.128

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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 23.788ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)