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 = 10378443

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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
57022856 GT-AG 0 1.000000099473604e-05 1436 rna-XM_025117129.1 10378443 1 13653725 13655160 Cynara cardunculus 4265 GAG|GTTAGTAAAA...TTAATCTGATAA/GTTAATCTGATA...TACAG|CTC 0 1 5.981
57022857 GT-AG 0 3.2620582684565714e-05 263 rna-XM_025117129.1 10378443 2 13653252 13653514 Cynara cardunculus 4265 GAG|GTAACGCCTT...TAACATTTAATC/CATTTAATCATT...TGCAG|TTA 0 1 11.879
57022858 GT-AG 0 2.260919525969738 139 rna-XM_025117129.1 10378443 3 13652859 13652997 Cynara cardunculus 4265 AGA|GTATGCTTTA...TGATTCTTACAT/CTGATTCTTACA...GTCAG|GAG 2 1 19.012
57022859 GC-AG 0 1.000000099473604e-05 84 rna-XM_025117129.1 10378443 4 13652504 13652587 Cynara cardunculus 4265 AAG|GCAAGTCTTT...AGTATTTTATTC/ATTTTATTCACT...TGCAG|GAA 0 1 26.622
57022860 GT-AG 0 1.000000099473604e-05 552 rna-XM_025117129.1 10378443 5 13651868 13652419 Cynara cardunculus 4265 CAG|GTAAGTCCTT...GGATGTTTAAAT/CGGATATTAAAT...TGCAG|GTA 0 1 28.981
57022861 GT-AG 0 1.000000099473604e-05 416 rna-XM_025117129.1 10378443 6 13649377 13649792 Cynara cardunculus 4265 GAA|GTAAGTGACC...CTCTTCTTATTT/GCTCTTCTTATT...AACAG|CAG 2 1 87.251
57022862 GT-AG 0 0.0002628121590903 121 rna-XM_025117129.1 10378443 7 13649051 13649171 Cynara cardunculus 4265 AAG|GTAGTCCTCA...CTCATTTTGATG/GTATCACTCATT...CTCAG|AAG 0 1 93.008

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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]);