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 = 18699358

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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
99735808 GT-AG 0 0.0008818808018196 2664 rna-XM_035688562.1 18699358 1 1052175 1054838 Juglans regia 51240 GAG|GTTCCTGGTT...TACTGCTTAACT/GCTTAACTTATT...GCCAG|CTT 0 1 6.916
99735809 GT-AG 0 0.0275512424999627 1043 rna-XM_035688562.1 18699358 2 1055049 1056091 Juglans regia 51240 GAT|GTATGTTCCT...TGGTCATTGATG/TTATTGGTCATT...TGTAG|AAA 0 1 12.612
99735810 GT-AG 0 0.0008705700940806 185 rna-XM_035688562.1 18699358 3 1056400 1056584 Juglans regia 51240 TGA|GTAAGCTTAA...TTGTTCTCATTT/TTTGTTCTCATT...CTCAG|GCG 2 1 20.966
99735811 GC-AG 0 1.000000099473604e-05 69 rna-XM_035688562.1 18699358 4 1056856 1056924 Juglans regia 51240 CAG|GCAAGTATTT...TATGTATTAATA/TATGTATTAATA...AGCAG|GAA 0 1 28.316
99735812 GT-AG 0 0.0001056409926202 569 rna-XM_035688562.1 18699358 5 1057009 1057577 Juglans regia 51240 AGA|GTAAGTTCTT...TTTCTTTTCATT/TTTCTTTTCATT...CACAG|ACT 0 1 30.594
99735813 GT-AG 0 3.0907986597432915e-05 1325 rna-XM_035688562.1 18699358 6 1059701 1061025 Juglans regia 51240 AAC|GTAAGTTCTA...TGACTTCTAACT/TGACTTCTAACT...TTCAG|TGG 2 1 88.175
99735814 GT-AG 0 1.000000099473604e-05 182 rna-XM_035688562.1 18699358 7 1061198 1061379 Juglans regia 51240 CAG|GTAAGGGATT...TTTTTCTGATTT/TTTTTTCTGATT...GACAG|TCT 0 1 92.84

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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]);