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 = 17394012

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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
92860517 GT-AG 0 0.0303209016349112 1317 rna-XM_039203557.1 17394012 1 145223 146539 Hibiscus syriacus 106335 CTG|GTATTTTCTT...TCCTTTTTGAAC/ATGTATTTAACT...GACAG|GCA 0 1 2.198
92860518 GT-AG 0 0.000153375943962 239 rna-XM_039203557.1 17394012 2 147335 147573 Hibiscus syriacus 106335 AAG|GTATGGCTTA...TCGTCCTTATAA/TTATAATTTACC...TCTAG|TTG 0 1 43.799
92860519 GT-AG 0 1.000000099473604e-05 137 rna-XM_039203557.1 17394012 3 147796 147932 Hibiscus syriacus 106335 GAG|GTGAAAATTT...TTTTCTTTGGTC/TTGTATTTCATT...TCCAG|GAT 0 1 55.416
92860520 GT-AG 0 1.000000099473604e-05 86 rna-XM_039203557.1 17394012 4 147983 148068 Hibiscus syriacus 106335 AAG|GTGCTTAATA...GGAATTTTAAAT/ATGACTTTCATT...GAAAG|TGG 2 1 58.032
92860521 GT-AG 0 1.000000099473604e-05 82 rna-XM_039203557.1 17394012 5 148159 148240 Hibiscus syriacus 106335 CAG|GTGTGTAGCA...TAAACTTTAACG/TGGATTTTAAAC...TGTAG|GAT 2 1 62.742
92860522 GC-AG 0 1.000000099473604e-05 102 rna-XM_039203557.1 17394012 6 148338 148439 Hibiscus syriacus 106335 GAG|GCAAGAAATC...TTCTTTTTGTCA/TATAATCTCATC...TTCAG|TTC 0 1 67.818
92860523 GT-AG 0 1.000000099473604e-05 192 rna-XM_039203557.1 17394012 7 148512 148703 Hibiscus syriacus 106335 CAG|GTACGGAAAG...GGTTTCTTAATC/GCTTTGTTCATT...TGCAG|GAA 0 1 71.586
92860524 GT-AG 0 1.000000099473604e-05 325 rna-XM_039203557.1 17394012 8 148815 149139 Hibiscus syriacus 106335 AAG|GTAAATTAGA...CTTGCTTCAATT/ACTTGCTTCAAT...CTCAG|GCT 0 1 77.394

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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]);