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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)

7 rows where transcript_id = 17285706

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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
92354392 GT-AG 0 0.0001098375865091 102 rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1330895 17285706 1 669304 669405 Hesseltinella vesiculosa 101127 ACT|GTAAGCAGTG...TCTGTCTGAAAC/CTCTGTCTGAAA...AATAG|GTG 1 1 15.427
92354393 GT-AG 0 6.070178906055884e-05 53 rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1330895 17285706 2 669015 669067 Hesseltinella vesiculosa 101127 TTG|GTAAGCTGTC...TGCACCTAACTG/GTGCACCTAACT...CAAAG|ATT 0 1 23.554
92354394 GT-AG 0 1.0066646075352094e-05 90 rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1330895 17285706 3 668749 668838 Hesseltinella vesiculosa 101127 TTT|GTAAGTGGTT...TTTTTTTTGGCA/AAGAGACTCATT...GAAAG|AGG 2 1 29.614
92354395 GT-AG 0 0.0003068857760605 66 rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1330895 17285706 4 667973 668038 Hesseltinella vesiculosa 101127 AAG|GTACGCTGGT...TTTTTTTTGGCC/CAGTGGCTGACT...TCTAG|GTT 1 1 54.063
92354396 GT-AG 0 7.215348834234154e-05 91 rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1330895 17285706 5 667392 667482 Hesseltinella vesiculosa 101127 TAC|GTAAGTATGC...CTCTTTTTAAAA/CTCTTTTTAAAA...ACTAG|CGC 2 1 70.937
92354397 GT-AG 0 1.000000099473604e-05 77 rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1330895 17285706 6 667206 667282 Hesseltinella vesiculosa 101127 GAG|GTGAGCTGAA...TTTTTTTTTTTT/AAAAATCTGACT...TGCAG|CAT 0 1 74.69
92354398 GT-AG 0 0.0001041324583445 71 rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1330895 17285706 7 666952 667022 Hesseltinella vesiculosa 101127 CCG|GTATAGCCAA...ATTTTCTTTTCT/AGTATGCTGACG...ACTAG|CTG 0 1 80.992

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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 24.764ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)