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 = 2014073

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
10832551 GT-AG 0 0.0042298228168059 7202 rna-XM_013200508.1 2014073 1 5786964 5794165 Anser cygnoides 8845 AAG|GTACTCCTCT...CTACTTTTAATC/CTACTTTTAATC...TTTAG|GTA 1 1 8.554
10832552 GT-AG 0 1.000000099473604e-05 95 rna-XM_013200508.1 2014073 2 5794242 5794336 Anser cygnoides 8845 TAA|GTAAGTATAG...ATGTATTTATTG/AATGTATTTATT...TACAG|CAT 2 1 12.087
10832553 GT-AG 0 1.000000099473604e-05 1603 rna-XM_013200508.1 2014073 3 5794405 5796007 Anser cygnoides 8845 GAG|GTAGGTGTTA...TTGGTTTTATTC/TTTGGTTTTATT...TGTAG|TTC 1 1 15.249
10832554 GT-AG 0 1.000000099473604e-05 2768 rna-XM_013200508.1 2014073 4 5796195 5798962 Anser cygnoides 8845 GAG|GTAAAGTTGG...TTTCTTTTATTA/ATTTCTTTTATT...TTCAG|TGG 2 1 23.942
10832555 GT-AG 0 1.000000099473604e-05 874 rna-XM_013200508.1 2014073 5 5799111 5799984 Anser cygnoides 8845 AAG|GTAAAGCTAT...TTTTCCTTGTTT/TAAATACTAACT...AATAG|CCT 0 1 30.823
10832556 GT-AG 0 1.000000099473604e-05 604 rna-XM_013200508.1 2014073 6 5801167 5801770 Anser cygnoides 8845 CTA|GTGAGTACTA...TTTCATTTAGTT/CTTTCATTTAGT...TTTAG|TCT 0 1 85.774
10832557 GG-TG 0 1.000000099473604e-05 3052 rna-XM_013200508.1 2014073 7 5801819 5804870 Anser cygnoides 8845 AAA|GGTAAGTAAT...AATGTCTTTGCT/ATAAAATTAAAA...TTCTG|AAA 0 1 88.006
10832558 GT-AG 0 0.0010587595651369 2001 rna-XM_013200508.1 2014073 8 5804993 5806993 Anser cygnoides 8845 CAG|GTAGGCTGCG...ATATTCTTGATT/ATATTCTTGATT...TTCAG|ATG 2 1 93.677

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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]);