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)

7 rows where transcript_id = 38228063

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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
211077883 GT-AG 0 1.000000099473604e-05 425 rna-XM_047002358.1 38228063 2 4021603 4022027 Xenia sp. carnegie-2017 2897299 CAG|GTAAATGATA...TCTGTTTTGACA/TTTGTGCTTATC...CATAG|AAA 0 1 3.665
211077884 GT-AG 0 4.711128431942329e-05 246 rna-XM_047002358.1 38228063 3 4023431 4023676 Xenia sp. carnegie-2017 2897299 TAG|GTAGGTTATC...GTTGTTTTGATA/GTTGTTTTGATA...GTTAG|TTC 2 1 14.031
211077885 GT-AG 0 0.000942271158482 110 rna-XM_047002358.1 38228063 4 4023734 4023843 Xenia sp. carnegie-2017 2897299 TCG|GTATGTCATT...TATGCTTTATAC/GTATGCTTTATA...TTTAG|GAT 2 1 14.452
211077886 GT-AG 0 1.000000099473604e-05 64 rna-XM_047002358.1 38228063 5 4023984 4024047 Xenia sp. carnegie-2017 2897299 AAG|GTAGGTGTGT...TTTGCTTCAACC/ATTTGCTTCAAC...TGTAG|AAC 1 1 15.487
211077887 GT-AG 0 1.000000099473604e-05 247 rna-XM_047002358.1 38228063 6 4031963 4032209 Xenia sp. carnegie-2017 2897299 TGG|GTTGGATTAT...ATCTCTTCAAAT/AATCTCTTCAAA...TGAAG|AGT 2 1 73.969
211077888 GT-AG 0 1.000000099473604e-05 338 rna-XM_047002358.1 38228063 8 4035582 4035919 Xenia sp. carnegie-2017 2897299 CAG|GTAAATATGT...TAGCTTTTATAT/GCTGTGCTAATC...CTTAG|CAA 0 1 98.87
211085813 GT-AG 0 1.000000099473604e-05 6145 rna-XM_047002358.1 38228063 1 4015142 4021286 Xenia sp. carnegie-2017 2897299 CAC|GTAAGTGATT...ACATGCTTAACT/TTTTTTTTCAAA...TTTAG|ATT   0 1.803

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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]);