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)

9 rows where transcript_id = 5774009

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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
29499332 GT-AG 0 1.000000099473604e-05 94 rna-XM_020360458.2 5774009 1 14112631 14112724 Cajanus cajan 3821 AAG|GTACAACACT...TTTTCCTTCCTT/TCTCGCGTAACT...TGCAG|ATC 1 1 6.855
29499333 GT-AG 0 1.000000099473604e-05 106 rna-XM_020360458.2 5774009 2 14112481 14112586 Cajanus cajan 3821 GAG|GTGCGTCTCG...TTGCTTTTGATG/TTGATGCTCACT...TTCAG|AGC 0 1 8.578
29499334 GT-AG 0 1.000000099473604e-05 137 rna-XM_020360458.2 5774009 3 14112208 14112344 Cajanus cajan 3821 GTG|GTAAGTGGAT...GTTGTCATGATG/GTTGTTGTCATG...GTCAG|ATT 1 1 13.905
29499335 GT-AG 0 7.170713381743229 630 rna-XM_020360458.2 5774009 4 14111451 14112080 Cajanus cajan 3821 CAG|GTATCTTTTT...ATCTCATTAATG/GTGCATCTCATT...TGCAG|TGA 2 1 18.88
29499336 GT-AG 0 1.000000099473604e-05 797 rna-XM_020360458.2 5774009 5 14110052 14110848 Cajanus cajan 3821 AAG|GTGACTAGGA...ACTTTTGTAACA/TGGTTTCTAAGT...TTCAG|CTG 1 1 42.46
29499337 GC-AG 0 1.000000099473604e-05 88 rna-XM_020360458.2 5774009 6 14109681 14109768 Cajanus cajan 3821 TAG|GCATGTGTTT...TCATTCCTAGTT/TTGTGTTTCATT...TGCAG|AAA 2 1 53.545
29499338 GT-AG 0 1.000000099473604e-05 629 rna-XM_020360458.2 5774009 7 14108775 14109403 Cajanus cajan 3821 ATG|GTAATGCATA...TATTCTGTAATC/TATTCTGTAATC...TTTAG|CAG 0 1 64.395
29499339 GT-AG 0 5.7961703348166726e-05 373 rna-XM_020360458.2 5774009 8 14108240 14108612 Cajanus cajan 3821 GAG|GTGCATTTCT...TGTTTTTTAATT/TGTTTTTTAATT...TGTAG|GCT 0 1 70.74
29499340 GT-AG 0 1.000000099473604e-05 346 rna-XM_020360458.2 5774009 9 14107435 14107780 Cajanus cajan 3821 CAG|GTAGAAAGAT...TTTTTTTTGTTT/TGTTTAATTATT...GTTAG|AAT 0 1 88.719

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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]);