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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 = 3485070

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Suggested facets: dinucleotide_pair, 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
17202837 GT-AG 0 4.865816582492936e-05 290 rna-gnl|WGS:SAUD|Avbf_00182-RA_mrna 3485070 2 277872 278161 Armadillidium vulgare 13347 CTT|GTAAGTTTAA...ATAATTTTTTTT/ATAATAATAATT...TTCAG|AAA 2 1 11.159
17202838 GT-AG 0 0.0002417328488224 95 rna-gnl|WGS:SAUD|Avbf_00182-RA_mrna 3485070 3 277598 277692 Armadillidium vulgare 13347 CAG|GTAAACACGA...CATTCCTTAACA/AGTTTTCTTACT...TACAG|ATA 1 1 19.769
17202839 GT-AG 0 1.000000099473604e-05 2292 rna-gnl|WGS:SAUD|Avbf_00182-RA_mrna 3485070 4 275105 277396 Armadillidium vulgare 13347 CAT|GTAATTCATA...TATATATTCGCA/TATATATATATT...CACAG|TAA 1 1 29.437
17202840 GT-AG 0 0.0018449777120809 260 rna-gnl|WGS:SAUD|Avbf_00182-RA_mrna 3485070 5 274738 274997 Armadillidium vulgare 13347 GGT|GTAAATTGGA...ATTTTCTTATTT/TATTTTCTTATT...TGTAG|AAT 0 1 34.584
17202841 GT-AG 0 0.0048122902732631 717 rna-gnl|WGS:SAUD|Avbf_00182-RA_mrna 3485070 6 273801 274517 Armadillidium vulgare 13347 GCA|GTAAGTTTTT...ATATTTTTAATG/ATATTTTTAATG...TTCAG|TTT 1 1 45.166
17202842 GT-AG 0 1.000000099473604e-05 343 rna-gnl|WGS:SAUD|Avbf_00182-RA_mrna 3485070 7 273326 273668 Armadillidium vulgare 13347 CAG|GTGGTTATTA...ATTTTTTTATAT/AATTTTTTTATA...TCGAG|GAA 1 1 51.515
17202843 GT-AG 0 1.000000099473604e-05 86 rna-gnl|WGS:SAUD|Avbf_00182-RA_mrna 3485070 8 273121 273206 Armadillidium vulgare 13347 AAA|GTGAGTTGTT...ATGATATTAATT/ATGATATTAATT...TTAAG|TAT 0 1 57.239
17202844 GT-AG 0 2.6737314894434287e-05 1867 rna-gnl|WGS:SAUD|Avbf_00182-RA_mrna 3485070 9 271074 272940 Armadillidium vulgare 13347 TAT|GTAAGTTACT...TATATATTATAT/TATTATATTATA...TACAG|TTA 0 1 65.897
17202845 GT-AG 0 1.000000099473604e-05 3026 rna-gnl|WGS:SAUD|Avbf_00182-RA_mrna 3485070 1 278302 281327 Armadillidium vulgare 13347 TAG|GTAAGTGTGT...TATATATTATAT/ATATATATTATA...TATAG|GCC   0 5.002
17202846 AT-AG 0 1.000000099473604e-05 2822 rna-gnl|WGS:SAUD|Avbf_00182-RA_mrna 3485070 10 268096 270917 Armadillidium vulgare 13347 AAT|ATAATACAAT...ATATATATATTC/TATATATATATT...TGTAG|ATT   0 73.401
17202847 GT-AG 0 1.000000099473604e-05 1202 rna-gnl|WGS:SAUD|Avbf_00182-RA_mrna 3485070 11 266741 267942 Armadillidium vulgare 13347 CAG|GTAAGGAGAG...TGGACTTTATTA/CAGATTCTTATG...TTCAG|ATT   0 80.76

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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 24.973ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)