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 = 8392223

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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
45169038 GT-AG 0 0.0003974236203385 85 rna-XM_004488717.2 8392223 2 42459521 42459605 Cicer arietinum 3827 CAG|GTATATTCTT...TTTCTGTTTGCT/TGTTTGCTGACA...TGTAG|GAT 0 1 75.615
45169039 GT-AG 0 0.0052286494527459 403 rna-XM_004488717.2 8392223 3 42459037 42459439 Cicer arietinum 3827 CAG|GTACCATTAT...TATTTTCTAACA/TATTTTCTAACA...GACAG|ATC 0 1 77.692
45169040 GT-AG 0 0.002547939878625 96 rna-XM_004488717.2 8392223 4 42458788 42458883 Cicer arietinum 3827 CTG|GTAACTTGTC...CTTATATTGATG/ATGCAACTCATT...TTTAG|ACC 0 1 81.615
45169041 GT-AG 0 1.000000099473604e-05 133 rna-XM_004488717.2 8392223 5 42458491 42458623 Cicer arietinum 3827 TAG|GTAATGCATC...GTGATCTTATCA/TGTGATCTTATC...TCCAG|GTA 2 1 85.821
45169042 GT-AG 0 0.0258939390514938 91 rna-XM_004488717.2 8392223 6 42458252 42458342 Cicer arietinum 3827 AAG|GTATTTTTAT...AGTATTTTGACA/AGTATTTTGACA...ATCAG|GTA 0 1 89.615
45169043 GT-AG 0 1.000000099473604e-05 474 rna-XM_004488717.2 8392223 7 42457655 42458128 Cicer arietinum 3827 AAG|GTAAAACTTA...GCCTTGTTGACT/TGTTGACTTATG...CTTAG|GTT 0 1 92.769
45169044 GT-AG 0 3.4274214978293384e-05 1296 rna-XM_004488717.2 8392223 8 42456271 42457566 Cicer arietinum 3827 TAG|GTACTGTTCT...TATATTTTCACT/TATATTTTCACT...TACAG|GCG 1 1 95.026
45180620 GT-AG 0 0.0294367726862905 900 rna-XM_004488717.2 8392223 1 42462632 42463531 Cicer arietinum 3827 CAG|GTATACTGAT...TACATCTTAATC/CTTAATCTCATT...TACAG|GGT   0 6.538

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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]);