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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)

14 rows where transcript_id = 3485075

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Suggested facets: score, 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
17202857 GT-AG 0 8.864795859857959e-05 20070 rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 1 2581 22650 Armadillidium vulgare 13347 TAT|GTAAATAAAA...TTTTCTTTATTA/ATTTTCTTTATT...TACAG|TTT 2 1 0.79
17202858 GT-AG 0 1.000000099473604e-05 108 rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 2 22793 22900 Armadillidium vulgare 13347 AAA|GTGAGTACAT...TTATTTTTATCA/ATTATTTTTATC...CATAG|GTT 0 1 7.385
17202859 GT-AG 0 1.000000099473604e-05 3984 rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 3 23006 26989 Armadillidium vulgare 13347 AAG|GTTAGTAACT...ATATATATATAT/TATATATATATA...ATAAG|AAT 0 1 12.262
17202860 GT-AG 0 1.000000099473604e-05 117 rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 4 27152 27268 Armadillidium vulgare 13347 CAG|GTAGAACCTT...ATTTCTTTACAT/TATTTCTTTACA...TTTAG|GGG 0 1 19.786
17202861 GT-AG 0 0.0050325960337273 1127 rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 5 27410 28536 Armadillidium vulgare 13347 AAG|GTATTTTTAC...AAAATATTAATT/GTTTCGCTCATT...TTCAG|ATT 0 1 26.335
17202862 GT-AG 0 0.0053259019500322 2383 rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 6 28699 31081 Armadillidium vulgare 13347 AAG|GTATTTTATA...TAGATTTTATTA/TTAGATTTTATT...TTTAG|GCA 0 1 33.86
17202863 GT-AG 0 3.465237112332676e-05 1354 rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 7 31130 32483 Armadillidium vulgare 13347 TTG|GTAAACGCCC...GCTCCTTTGAAA/TAACATTTCAGT...TTCAG|TAT 0 1 36.089
17202864 GT-AG 0 1.000000099473604e-05 1157 rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 8 32646 33802 Armadillidium vulgare 13347 GAG|GTAAGGATCT...TATATATTATAT/TATTATATTATA...TAAAG|ACG 0 1 43.614
17202865 GT-AG 0 1.000000099473604e-05 1203 rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 9 33870 35072 Armadillidium vulgare 13347 TTG|GTTTTAAGGA...TGTTTTTTAGAT/TTGATGTTTACA...TTTAG|ATT 1 1 46.725
17202870 GT-AG 0 2.078224077297442e-05 1079 rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 10 35219 36297 Armadillidium vulgare 13347 CAG|GTAAGTTATC...GATTTTTTAACT/TATTTTTTTATT...TTTAG|TAA   0 53.507
17202871 GT-AG 0 0.0137764277647543 373 rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 11 36472 36844 Armadillidium vulgare 13347 TTT|GTATGATTAT...TAAGTTTTATTT/ATTTGTATCATT...TATAG|AGA   0 61.588
17202872 GT-AG 0 1.000000099473604e-05 3694 rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 12 36942 40635 Armadillidium vulgare 13347 TCT|GTGAGTATTT...TCAACCTTGAAC/AAAATACTCATT...TACAG|AGA   0 66.094
17202873 GT-AG 0 7.022542018986612e-05 3778 rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 13 40821 44598 Armadillidium vulgare 13347 AAA|GTAGGTTATA...CTAATTTTATAA/GTAATACTGATT...AACAG|AAA   0 74.686
17202874 GT-AG 0 3.3431405662649555e-05 2142 rna-gnl|WGS:SAUD|Avbf_03784-RA_mrna 3485075 14 44712 46853 Armadillidium vulgare 13347 TTA|GTAAGTTATG...CTTCGTTTATTT/ACTTCGTTTATT...TCTAG|GGA   0 79.935

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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 25.535ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)