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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)

21 rows where transcript_id = 2279583

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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
12239544 GT-AG 0 1.000000099473604e-05 291 rna-XM_027997372.1 2279583 1 2398022 2398312 Aphis gossypii 80765 AGA|GTAAGAAAAT...GTTTTTTTACAT/TGTTTTTTTACA...TCCAG|GAG 0 1 4.029
12239545 GT-AG 0 0.0010913008988371 739 rna-XM_027997372.1 2279583 2 2398586 2399324 Aphis gossypii 80765 GAA|GTATAATCAC...TATACCATAATA/AATTATTTAACG...TATAG|GGT 0 1 10.576
12239546 GT-AG 0 1.000000099473604e-05 2422 rna-XM_027997372.1 2279583 3 2399462 2401883 Aphis gossypii 80765 CAG|GTAATTACAC...AATTTCTTATTA/TAATTTCTTATT...TTCAG|AAT 2 1 13.861
12239547 GT-AG 0 0.0014809398838805 113 rna-XM_027997372.1 2279583 4 2402045 2402157 Aphis gossypii 80765 TAG|GTATTTATAA...ATATTTTTATAT/TATATTTTTATA...TATAG|AAA 1 1 17.722
12239548 GT-AG 0 0.0001304936078068 595 rna-XM_027997372.1 2279583 5 2402297 2402891 Aphis gossypii 80765 TAG|GTAAACTACT...CATCCATTAATA/CTATATCTAATT...CGCAG|ACC 2 1 21.055
12239549 GT-AG 0 0.0001316541631256 514 rna-XM_027997372.1 2279583 6 2403106 2403619 Aphis gossypii 80765 TGT|GTAAGTATAA...AAAACTTTAATG/TTTATTTTTATC...CGTAG|ACT 0 1 26.187
12239550 GT-AG 0 1.000000099473604e-05 1507 rna-XM_027997372.1 2279583 7 2403788 2405294 Aphis gossypii 80765 ACT|GTAAGTAGAA...TTTGTATTGAAT/TTTGTATTGAAT...CATAG|GTA 0 1 30.216
12239551 GT-AG 0 1.000000099473604e-05 80 rna-XM_027997372.1 2279583 8 2405625 2405704 Aphis gossypii 80765 GAC|GTAAGTGTAT...GGCTATTTAAAA/ATTGGTATAATA...TACAG|ACT 0 1 38.129
12239552 GT-AG 0 0.0002168895768017 300 rna-XM_027997372.1 2279583 9 2405791 2406090 Aphis gossypii 80765 AAG|GTACACATAT...TATATTTCGATA/AACACAATCACT...TTTAG|TTA 2 1 40.192
12239553 GT-AG 0 1.000000099473604e-05 371 rna-XM_027997372.1 2279583 10 2406181 2406551 Aphis gossypii 80765 TAA|GTGAGCACAT...ACAAACTTATTT/AACAAACTTATT...TTTAG|ATC 2 1 42.35
12239554 GT-AG 0 1.000000099473604e-05 69 rna-XM_027997372.1 2279583 11 2406623 2406691 Aphis gossypii 80765 CAA|GTAATGACGT...TTTTTTTTAATG/TTTTTTTTAATG...TACAG|GTA 1 1 44.053
12239555 GC-AG 0 1.000000099473604e-05 68 rna-XM_027997372.1 2279583 12 2406748 2406815 Aphis gossypii 80765 AAG|GCAATGACTT...TTTTTTTTATAT/ATTTTTTTTATA...TTTAG|AAA 0 1 45.396
12239556 GT-AG 0 1.9504605926592065e-05 69 rna-XM_027997372.1 2279583 13 2406950 2407018 Aphis gossypii 80765 TAA|GTAAGTTAAA...AAAATTTTAAAC/CTAATATTTATT...TTCAG|CTC 2 1 48.609
12239557 GT-AG 0 1.000000099473604e-05 65 rna-XM_027997372.1 2279583 14 2407553 2407617 Aphis gossypii 80765 GAG|GTAAGTAAAA...AACGTTTTGGCA/TATGTACTTATT...CATAG|ACC 2 1 61.415
12239558 GT-AG 0 0.0107851366331372 101 rna-XM_027997372.1 2279583 15 2407797 2407897 Aphis gossypii 80765 CAG|GTATCAAATA...TATTTCGTATTA/TGTGTACTCAAT...CCCAG|AAA 1 1 65.707
12239559 GT-AG 0 0.0282956482284149 60 rna-XM_027997372.1 2279583 16 2408054 2408113 Aphis gossypii 80765 TTG|GTATGTTTTA...TAAATATTAACA/TAAATATTAACA...TACAG|ATA 1 1 69.448
12239560 GT-AG 0 0.0020317348676635 67 rna-XM_027997372.1 2279583 17 2408536 2408602 Aphis gossypii 80765 AGA|GTACGTTTTT...TAGTTTTTGCTT/TGGATATTAATG...TATAG|GAC 0 1 79.568
12239561 GT-AG 0 1.0634086609692844e-05 464 rna-XM_027997372.1 2279583 18 2408792 2409255 Aphis gossypii 80765 GCA|GTAAGTATAT...TTATTCATACTG/TAATTATTCATA...TACAG|TCG 0 1 84.101
12239562 GT-AG 0 0.1000179017656098 81 rna-XM_027997372.1 2279583 19 2409440 2409520 Aphis gossypii 80765 ACG|GTAGCTATTA...TGTTTCTTAAAT/ATGTTTTTGAGT...TACAG|GAA 1 1 88.513
12239563 GT-AG 0 0.0007774932530121 97 rna-XM_027997372.1 2279583 20 2409660 2409756 Aphis gossypii 80765 AAG|GTATATATGG...GTCGTTATAATA/GTTATAATAACT...ATTAG|ATG 2 1 91.847
12240574 GT-AG 0 0.0002817809854496 815 rna-XM_027997372.1 2279583 21 2409855 2410669 Aphis gossypii 80765 GAT|GTAAGTTTTT...TTGGTTTTATAT/ATTGGTTTTATA...TCCAG|GGC   0 94.197

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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]);
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