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 = 10082925

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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
55388869 GT-AG 0 1.000000099473604e-05 1027 rna-XM_023138197.1 10082925 2 10514952 10515978 Cucurbita maxima 3661 GAG|GTTAGTAAAT...TTGCTCTTACAT/ATTTATCTGATT...GGCAG|CTT 0 1 12.309
55388870 GT-AG 0 0.3931506169016436 548 rna-XM_023138197.1 10082925 3 10516189 10516736 Cucurbita maxima 3661 AGT|GTATGCTATT...AATTTCATACCT/AGTAATTTCATA...TGCAG|CTT 0 1 18.04
55388871 GT-AG 0 0.2878146690876947 1234 rna-XM_023138197.1 10082925 4 10516991 10518224 Cucurbita maxima 3661 AAG|GTATTCTTCT...TCTTCTTTACTT/TCTTTACTTATT...TTTAG|GAA 2 1 24.973
55388872 GT-AG 0 1.000000099473604e-05 91 rna-XM_023138197.1 10082925 5 10518496 10518586 Cucurbita maxima 3661 AAG|GTAAAAAAAC...TTTTTTTTCATT/TTTTTTTTCATT...TGCAG|GAA 0 1 32.369
55388873 GT-AG 0 2.6843275402732524e-05 564 rna-XM_023138197.1 10082925 6 10518671 10519234 Cucurbita maxima 3661 AGG|GTAAGTTGAT...GTCTTCTTGATG/ATGTGTCTTATA...TTCAG|ATG 0 1 34.662
55388874 GT-AG 0 0.0001048939730888 1071 rna-XM_023138197.1 10082925 7 10521208 10522278 Cucurbita maxima 3661 AAT|GTTAGTTTCC...TGCACCTTAATC/CTGCACCTTAAT...TGCAG|TGG 2 1 88.51
55388875 GT-AG 0 1.000000099473604e-05 85 rna-XM_023138197.1 10082925 8 10522496 10522580 Cucurbita maxima 3661 CAG|GTAAAAAATT...GTTATTTTGAAT/GTTATTTTGAAT...TACAG|TTT 0 1 94.432
55396129 GT-AG 0 0.000233224671085 257 rna-XM_023138197.1 10082925 1 10514351 10514607 Cucurbita maxima 3661 GAC|GTTAGCTTCT...TTATTCCTGACT/TTATTCCTGACT...AACAG|AAC   0 6.332

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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]);