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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)

9 rows where transcript_id = 2279614

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
12239906 GT-AG 0 1.000000099473604e-05 84 rna-XM_027998539.1 2279614 1 537461 537544 Aphis gossypii 80765 TTG|GTGAGTTTGA...TTATATTTATCA/CTTTTACTAACA...TATAG|CTG 0 1 6.855
12239907 GT-AG 0 1.000000099473604e-05 59 rna-XM_027998539.1 2279614 2 537737 537795 Aphis gossypii 80765 GAA|GTAAGTAAAC...TTAATCATAAAT/AAATTAATCATA...TTTAG|GAT 0 1 16.393
12239908 GT-AG 0 1.000000099473604e-05 1506 rna-XM_027998539.1 2279614 3 538017 539522 Aphis gossypii 80765 TAG|GTAAAAAAAT...TATGTATTAACA/ATAATATTAATT...TTTAG|TAA 2 1 27.372
12239909 GT-AG 0 0.0008136943776352 76 rna-XM_027998539.1 2279614 4 539609 539684 Aphis gossypii 80765 CAG|GTACCTACAT...AATTGTTTAAAT/AATTGTTTAAAT...TGTAG|GTT 1 1 31.644
12239910 GT-AG 0 1.1389915720033434e-05 63 rna-XM_027998539.1 2279614 5 539816 539878 Aphis gossypii 80765 GTG|GTTGGTTTCA...TATATTTTAATT/TATATTTTAATT...TTTAG|AAC 0 1 38.152
12239911 GT-AG 0 0.0029955093987442 1383 rna-XM_027998539.1 2279614 6 540073 541455 Aphis gossypii 80765 TAG|GTATTTTATT...ATTTATTTATTT/TATTTATTTATT...TTTAG|AGC 2 1 47.789
12239912 GT-AG 0 0.1299131920713945 71 rna-XM_027998539.1 2279614 7 541867 541937 Aphis gossypii 80765 AAA|GTATGTTTGT...CATTTTTTAATA/CATTTTTTAATA...TGTAG|TCA 2 1 68.207
12239913 GT-AG 0 3.783347027066375e-05 642 rna-XM_027998539.1 2279614 8 542191 542832 Aphis gossypii 80765 GAG|GTAATTTTAG...TTTTCTCTAATT/TTTTCTCTAATT...CTCAG|GCT 0 1 80.775
12239914 GT-AG 0 1.000000099473604e-05 79 rna-XM_027998539.1 2279614 9 543003 543081 Aphis gossypii 80765 AAG|GTGATTTATC...TATATTTTATTA/ATATATTTTATT...TTTAG|TAA 2 1 89.22

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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 28.927ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)