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 = 33469740

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Suggested facets: score, length, 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
187538864 GT-AG 0 0.0050817489315079 504 rna-XM_021449739.1 33469740 2 53011566 53012069 Sorghum bicolor 4558 CAG|GTTGCTTCTT...TATTTCTTATCT/ATATTTCTTATC...AACAG|AGG 1 1 39.054
187538865 GT-AG 0 2.152986060005112e-05 84 rna-XM_021449739.1 33469740 3 53012259 53012342 Sorghum bicolor 4558 GAG|GTATGTGGGA...TGACTATTAATG/AGTCACCTGACT...TCCAG|GAT 1 1 43.233
187538866 GT-AG 0 0.2060680143280406 108 rna-XM_021449739.1 33469740 4 53012439 53012546 Sorghum bicolor 4558 CAG|GTATATTTTA...TTTTTCTTATTT/GTTTTTCTTATT...TTCAG|CCG 1 1 45.356
187538867 GT-AG 0 0.0003241007428094 1877 rna-XM_021449739.1 33469740 5 53012716 53014592 Sorghum bicolor 4558 CAG|GTATGCCAAA...GTTGTCTTGCTC/TTGTGTTTTATC...CATAG|CAG 2 1 49.093
187538868 GT-AG 0 1.000000099473604e-05 84 rna-XM_021449739.1 33469740 6 53014720 53014803 Sorghum bicolor 4558 CAG|GTAATGCTAT...TCGTTTTTGACA/TTATTACTAACT...TTCAG|ATG 0 1 51.902
187538869 GT-AG 0 0.0062513471696374 100 rna-XM_021449739.1 33469740 7 53016580 53016679 Sorghum bicolor 4558 TGG|GTATGTCTCC...ATCTTTTTGATT/ATCTTTTTGATT...TTCAG|GTT 0 1 91.176
187558148 GT-AG 0 1.000000099473604e-05 2260 rna-XM_021449739.1 33469740 1 53007761 53010020 Sorghum bicolor 4558 CTG|GTACGGAGAT...CTATTCTTGCTG/GTATTACTGACA...TGCAG|ATG   0 7.519

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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]);