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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)

11 rows where transcript_id = 3485063

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
17202804 GT-AG 0 1.000000099473604e-05 4113 rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 1 16840 20952 Armadillidium vulgare 13347 TTG|GTAAGAATTT...TATACCATAATA/ATGGTGCTCATA...TTCAG|TTA 0 1 1.73
17202805 GT-AG 0 1.000000099473604e-05 958 rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 2 15810 16767 Armadillidium vulgare 13347 AAG|GTAAGTACAG...TATTGCTCAATA/ATATTGCTCAAT...GGCAG|GAC 0 1 5.503
17202806 GT-AG 0 1.000000099473604e-05 559 rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 3 15105 15663 Armadillidium vulgare 13347 TGG|GTGAGTTCAT...ATATATATATAT/TATATATATATA...TATAG|GGA 2 1 13.155
17202807 GT-AG 0 0.0032379466962708 988 rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 4 13912 14899 Armadillidium vulgare 13347 CAG|GTATGCATCT...TTAAACTTATTT/TATTTATTTATA...TGCAG|AGT 0 1 23.899
17202808 GT-AG 0 1.000000099473604e-05 164 rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 5 13530 13693 Armadillidium vulgare 13347 TGA|GTAAGATATC...TTATTTTTGCTT/TGGAAATTTATT...AAAAG|AAA 2 1 35.325
17202809 GT-AG 0 1.000000099473604e-05 82 rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 6 13279 13360 Armadillidium vulgare 13347 AAG|GTCTGGCAAT...TTATTATTAATA/TTATTATTAATA...TTCAG|ACA 0 1 44.182
17202810 GT-AG 0 0.0001910734905194 96 rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 7 13078 13173 Armadillidium vulgare 13347 TCT|GTAAGATTGA...TTACTTTTATTT/TTTACTTTTATT...GACAG|ATA 0 1 49.686
17202811 GT-AG 0 5.198589403640919e-05 122 rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 8 12785 12906 Armadillidium vulgare 13347 AAA|GTAAGTTATT...CAAATTTTAACA/ATGATTTTGACA...TGCAG|GAA 0 1 58.648
17202812 GT-AG 0 1.000000099473604e-05 85 rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 9 12567 12651 Armadillidium vulgare 13347 CTT|GTAAGTAAAG...ACCTTCTTATAT/AACCTTCTTATA...TTTAG|GGT 1 1 65.618
17202813 GT-AG 0 1.009071501593712e-05 1400 rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 10 10967 12366 Armadillidium vulgare 13347 ACA|GTAAGTAATG...ATATTTTTGAAG/GTTTTACTCACT...TACAG|GAA 0 1 76.101
17202814 GT-AG 0 0.0005928526643897 699 rna-gnl|WGS:SAUD|Avbf_10287-RA_mrna 3485063 11 10081 10779 Armadillidium vulgare 13347 CAT|GTAAGTTTGT...TTTTTCTTATTC/ATTTTTCTTATT...TAAAG|GGT 1 1 85.901

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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 24.642ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)