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 = 10143883

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
55681825 GT-AG 0 0.0033299220307064 1260 rna-XM_023665173.1 10143883 1 17821001 17822260 Cucurbita pepo 3663 CAG|GTCTTCTTTC...TTCCTCTTTGCG/TATAATTTCATT...TGCAG|GCA 0 1 1.426
55681826 GT-AG 0 1.000000099473604e-05 1105 rna-XM_023665173.1 10143883 2 17822348 17823452 Cucurbita pepo 3663 AGT|GTGAGTTTGA...TATTCCTTGCAT/CTGTTGTTTATT...TTCAG|GAT 0 1 4.011
55681827 GT-AG 0 0.0001607112986654 131 rna-XM_023665173.1 10143883 3 17823543 17823673 Cucurbita pepo 3663 ACT|GTAAGATATT...TAGTCCTTGATA/ATTTATTTTACT...TTCAG|GCT 0 1 6.684
55681828 GT-AG 0 1.000000099473604e-05 104 rna-XM_023665173.1 10143883 4 17823761 17823864 Cucurbita pepo 3663 CTG|GTTGGTGACA...GGTCTTTTGATT/TTTTGATTCAAT...CTTAG|ATT 0 1 9.269
55681829 GT-AG 0 0.0010701582315978 464 rna-XM_023665173.1 10143883 5 17823985 17824448 Cucurbita pepo 3663 GAT|GTAAACTCTT...AGCTGTTTAATA/GGTTTACTGATG...TTCAG|GAC 0 1 12.834
55681830 GT-AG 0 1.000000099473604e-05 323 rna-XM_023665173.1 10143883 6 17826552 17826874 Cucurbita pepo 3663 CAG|GTAAAAGCCA...CTTATCTTGATG/TATGATCTTATC...TACAG|GTT 0 1 75.312
55681831 GT-AG 0 1.000000099473604e-05 391 rna-XM_023665173.1 10143883 7 17827022 17827412 Cucurbita pepo 3663 CAG|GTCATTTTCT...TATCCTATAATT/GTGGTTCTAATA...TCCAG|CTT 0 1 79.679
55681832 GT-AG 0 1.000000099473604e-05 579 rna-XM_023665173.1 10143883 8 17827934 17828512 Cucurbita pepo 3663 CAG|GTGATGTTTC...CTGTTCATATAA/TGCCTGTTCATA...TACAG|CCG 2 1 95.157

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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]);