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 = 15550538

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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
84004642 GT-AG 0 1.000000099473604e-05 201 rna-XM_028324510.1 15550538 3 56566807 56567007 Glycine soja 3848 TAG|GTAAGTGTGT...TTTTCCTTGAAT/CATTTTCTCAAT...GGCAG|GAT 1 1 25.73
84004643 GT-AG 0 2.278223416030343e-05 2744 rna-XM_028324510.1 15550538 4 56563892 56566635 Glycine soja 3848 CAG|GTATGTGCTG...TTGTGCATAACT/TTGTGCATAACT...TGCAG|GCC 1 1 30.575
84004644 GT-AG 0 1.000000099473604e-05 1104 rna-XM_028324510.1 15550538 5 56560681 56561784 Glycine soja 3848 GAA|GTAAGTAATA...TGACTTTTACTG/CTTTTACTGAAC...GTCAG|ATG 2 1 90.281
84004645 GT-AG 0 0.0039711181466015 211 rna-XM_028324510.1 15550538 6 56560354 56560564 Glycine soja 3848 ATG|GTATAATTAA...TTCCTTTTATTT/ATTCCTTTTATT...TACAG|AGA 1 1 93.568
84004646 GT-AG 0 1.000000099473604e-05 1649 rna-XM_028324510.1 15550538 7 56558586 56560234 Glycine soja 3848 GAG|GTAATAATCA...TTCACCTGATTC/TTTCACCTGATT...AGCAG|GAA 0 1 96.94
84012333 GT-AG 0 0.7943830851317066 105 rna-XM_028324510.1 15550538 1 56568061 56568165 Glycine soja 3848 TTT|GTATGTTCTT...TTTTCCTTGCTT/CCTTGTATGAAT...TACAG|ATA   0 7.566
84012334 GT-AG 0 0.0065403862680827 380 rna-XM_028324510.1 15550538 2 56567500 56567879 Glycine soja 3848 TTG|GTATGTCTTA...TTAATTTTAATT/TTAATTTTAATT...TTCAG|GGC   0 12.695

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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]);