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)

8 rows where transcript_id = 2158720

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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
11719647 GT-AG 0 1.000000099473604e-05 62 rna-XM_008863565.1 2158720 1 2285034 2285095 Aphanomyces invadans 157072 AAG|GTTGGGCGAT...CTTTCTTTTGCG/GCGATCGTCACG...TCTAG|ACG 0 1 6.565
11719648 GT-AG 0 0.0008490485154716 65 rna-XM_008863565.1 2158720 2 2284777 2284841 Aphanomyces invadans 157072 TAC|GTACTTCGTG...CTTGTTTCAATT/ACTTGTTTCAAT...AAGAG|TCC 0 1 10.809
11719649 GT-AG 0 1.000000099473604e-05 48 rna-XM_008863565.1 2158720 3 2284601 2284648 Aphanomyces invadans 157072 CTT|GTCGTGCAGA...GTTTGCTGATCG/TGTTTGCTGATC...GCGAG|TGA 2 1 13.638
11719650 GT-AG 0 0.009122020181927 66 rna-XM_008863565.1 2158720 4 2284413 2284478 Aphanomyces invadans 157072 GCC|GTTTATCTCT...TCGTTCTCAACC/TTCGTTCTCAAC...TGAAG|AGT 1 1 16.335
11719651 GT-AG 0 0.0041792458912959 74 rna-XM_008863565.1 2158720 5 2284283 2284356 Aphanomyces invadans 157072 TGC|GTTGCCCACG...TGAATTTTCACA/TGAATTTTCACA...CAAAG|CGA 0 1 17.573
11719652 GT-AG 0 0.0075815343126366 52 rna-XM_008863565.1 2158720 6 2283580 2283631 Aphanomyces invadans 157072 ACG|GTATCGCCCA...GCGTACTCAACT/AGCGTACTCAAC...CGTAG|ACT 0 1 31.963
11719653 GT-AG 0 0.0636083935303137 86 rna-XM_008863565.1 2158720 7 2280926 2281011 Aphanomyces invadans 157072 CAT|GTACGTTTTG...CGAGCCTTGATG/TTGTTGCTGACC...ACCAG|ACC 0 1 88.727
11719654 GT-AG 0 1.000000099473604e-05 47 rna-XM_008863565.1 2158720 8 2280561 2280607 Aphanomyces invadans 157072 GAG|GTGGGGGCGT...TCATGCTCGACT/GTCGCCGTCATG...CGTAG|ATG 0 1 95.756

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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]);