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)

10 rows where transcript_id = 38490442

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Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
213116457 GT-AG 0 1.000000099473604e-05 2298 rna-XM_020546042.2 38490442 1 42038651 42040948 Zea mays 4577 GAG|GTAAGCTGAT...GCCCTCTTACAT/ATTTTTTTCATC...TGCAG|CAT 0 1 9.689
213116458 GT-AG 0 1.000000099473604e-05 76 rna-XM_020546042.2 38490442 2 42038520 42038595 Zea mays 4577 TAG|GTAAGTAACT...ATTTCCTGATTA/AATTTCCTGATT...CGTAG|AGG 1 1 10.985
213116459 GT-AG 0 1.8609889295630605e-05 103 rna-XM_020546042.2 38490442 3 42038241 42038343 Zea mays 4577 AAA|GTAAGCCTAA...AACAACTTAGTT/GTGAAACTCATC...TGTAG|GTT 0 1 15.134
213116460 GT-AG 0 1.000000099473604e-05 233 rna-XM_020546042.2 38490442 4 42037807 42038039 Zea mays 4577 CAG|GTGCTACCTT...CTGGCTCTAATA/CTGGCTCTAATA...TACAG|GCC 0 1 19.873
213116461 GT-AG 0 0.0015146099996852 88 rna-XM_020546042.2 38490442 5 42037459 42037546 Zea mays 4577 CCT|GTAAGCAACT...ATATCCTTATCT/TTTTTTTTAAAT...TGTAG|TGG 2 1 26.002
213116462 GT-AG 0 1.000000099473604e-05 77 rna-XM_020546042.2 38490442 6 42037071 42037147 Zea mays 4577 TAG|GTAAGAGCAT...TTGTTTTTGACT/TTGTTTTTGACT...TTCAG|GTG 1 1 33.333
213116463 GT-AG 0 1.000000099473604e-05 88 rna-XM_020546042.2 38490442 7 42036762 42036849 Zea mays 4577 CAG|GTAAAGGAGG...TCACCTTTAGAA/CTGGTACTCACC...TTCAG|GTT 0 1 38.543
213116464 GT-AG 0 1.000000099473604e-05 603 rna-XM_020546042.2 38490442 8 42035818 42036420 Zea mays 4577 AAG|GTAAATCCTT...CCTATCTTGATT/TATGATTTGATT...GATAG|GAT 2 1 46.582
213116465 GT-AG 0 1.000000099473604e-05 106 rna-XM_020546042.2 38490442 9 42034918 42035023 Zea mays 4577 CAG|GTGATTGCAA...TTTACCTTATTA/TTAATTCTTATT...GACAG|CAA 1 1 65.299
213116466 GT-AG 0 1.000000099473604e-05 366 rna-XM_020546042.2 38490442 10 42034310 42034675 Zea mays 4577 CAG|GTAATAAAGT...AAATCCCTAATG/ATGGGTCTAATA...TGCAG|AAA 0 1 71.004

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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]);