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 = 20781766

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Suggested facets: 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
111341271 GT-AG 0 0.0014757531803123 158 rna-XM_021752102.2 20781766 2 37918114 37918271 Manihot esculenta 3983 AAA|GTAAGCATCT...TTTTTCTTATTT/CTTTTTCTTATT...GACAG|AAG 0 1 44.371
111341272 GT-AG 0 0.0005120294410268 120 rna-XM_021752102.2 20781766 3 37917852 37917971 Manihot esculenta 3983 AAT|GTATTGACCC...ATGTCATTAAAA/CTGTGACTAATG...TGCAG|ATC 1 1 47.058
111341273 GT-AG 0 8.98883127453184e-05 990 rna-XM_021752102.2 20781766 4 37916779 37917768 Manihot esculenta 3983 GAG|GTATGGTCAG...AAAATTTTGAAT/TTTGAATTTATG...GCCAG|TTG 0 1 48.628
111341274 GT-AG 0 2.1482695063826748e-05 563 rna-XM_021752102.2 20781766 5 37915977 37916539 Manihot esculenta 3983 TGG|GTAAGCATGC...CAACCATTGATT/GAATTTCTAATT...CTCAG|GTC 2 1 53.15
111341275 GT-AG 0 0.0011812631009995 892 rna-XM_021752102.2 20781766 6 37914998 37915889 Manihot esculenta 3983 TAG|GTATTGTTTC...TCGACTCTAACA/ACATGATTAATA...AATAG|GAT 2 1 54.797
111341276 GT-AG 0 9.610419973179198e-05 865 rna-XM_021752102.2 20781766 7 37914033 37914897 Manihot esculenta 3983 ATG|GTAGGTTTGA...TCCTTTTTATTT/TTTTTATTTATT...ATCAG|GCC 0 1 56.689
111341277 GT-AG 0 7.746873491098859e-05 99 rna-XM_021752102.2 20781766 8 37913720 37913818 Manihot esculenta 3983 AAG|GTATTGCTAT...TTTATCTTACTG/TTTTATCTTACT...TGTAG|GGT 1 1 60.738
111351933 GT-AG 0 0.0012138349321433 145 rna-XM_021752102.2 20781766 1 37920563 37920707 Manihot esculenta 3983 CTG|GTATTGCATT...TGTTTCTTGATT/TTTTTTTTTATG...GCTAG|TCA   0 3.728

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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]);