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 = 3611910

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
18022003 GT-AG 0 1.000000099473604e-05 1823 rna-XM_020393893.1 3611910 1 131727508 131729330 Asparagus officinalis 4686 GAG|GTTCGTCGTT...GAACTCTTACCT/TGAACTCTTACC...CATAG|GGT 2 1 8.281
18022004 GT-AG 0 1.622721244242701e-05 90 rna-XM_020393893.1 3611910 3 131724452 131724541 Asparagus officinalis 4686 TCT|GTAAGTAATA...GTCTTTTCAACA/TTCATTCTCATG...TGCAG|GAT 0 1 86.472
18022005 GT-AG 0 1.6925491786235166e-05 206 rna-XM_020393893.1 3611910 4 131724170 131724375 Asparagus officinalis 4686 GTG|GTAATATTTG...TAAACTTTATTC/ACTTTATTCATA...TGCAG|GCG 1 1 88.476
18022006 GT-AG 0 0.0102913864853638 99 rna-XM_020393893.1 3611910 5 131724003 131724101 Asparagus officinalis 4686 GCG|GTATTTTGAA...TTGTCCTTCTCT/CCTTCTCTGACA...TTCAG|GCC 0 1 90.269
18022007 GT-AG 0 1.000000099473604e-05 83 rna-XM_020393893.1 3611910 6 131723854 131723936 Asparagus officinalis 4686 AAT|GTAAGATCAT...TGATCCTAGATC/CCGTTTCTGATC...TGCAG|AGA 0 1 92.009
18022008 GT-AG 0 0.76259874265069 784 rna-XM_020393893.1 3611910 7 131722980 131723763 Asparagus officinalis 4686 TAT|GTATGCATTG...TCAATTTTAACC/TCAATTTTAACC...CGCAG|ATC 0 1 94.383
18022009 GT-AG 0 0.0001136743239081 192 rna-XM_020393893.1 3611910 8 131722611 131722802 Asparagus officinalis 4686 AAG|GTATGTCCTC...ATTTCCATAGAG/ATAATTGTAATT...TGCAG|GAG 0 1 99.051

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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]);