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 = 7607409

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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
39980288 GT-AG 0 1.3267779692207442e-05 336 rna-gnl|WGS:VWPQ|CEUAER_R02539_mrna 7607409 1 301272 301607 Ceuthmochares aereus 1961834 CAG|GTAATTTCTG...GTAAACTTAACC/TTCTGATTAACT...TTAAG|GAA 0 1 11.382
39980289 GT-AG 0 0.0006950826821518 661 rna-gnl|WGS:VWPQ|CEUAER_R02539_mrna 7607409 2 300554 301214 Ceuthmochares aereus 1961834 CAA|GTATGTCTAA...TTTGTGTTATTT/TTTTGTGTTATT...TATAG|GGG 0 1 19.106
39980290 GT-AG 0 1.000000099473604e-05 554 rna-gnl|WGS:VWPQ|CEUAER_R02539_mrna 7607409 3 299925 300478 Ceuthmochares aereus 1961834 TTG|GTAAGTATAT...TTAGCTTTGGCA/AAAGTAGTAATT...TCTAG|AGA 0 1 29.268
39980291 GT-AG 0 1.000000099473604e-05 5025 rna-gnl|WGS:VWPQ|CEUAER_R02539_mrna 7607409 4 294828 299852 Ceuthmochares aereus 1961834 CAT|GTAAGTACAA...CTGGTTTTACTT/TCTGGTTTTACT...TGTAG|ATT 0 1 39.024
39980292 GT-AG 0 8.056613410252734e-05 1556 rna-gnl|WGS:VWPQ|CEUAER_R02539_mrna 7607409 5 293182 294737 Ceuthmochares aereus 1961834 ATG|GTAAATTGCA...TGATTTTTGATC/TGATTTTTGATC...TGAAG|GCA 0 1 51.22
39980293 GT-AG 0 0.0002122191683627 4981 rna-gnl|WGS:VWPQ|CEUAER_R02539_mrna 7607409 6 288028 293008 Ceuthmochares aereus 1961834 GTT|GTACAGACTG...CCTATTTTATTT/CCCTATTTTATT...GACAG|AGG 2 1 74.661
39980294 GT-AG 0 1.000000099473604e-05 3479 rna-gnl|WGS:VWPQ|CEUAER_R02539_mrna 7607409 7 284469 287947 Ceuthmochares aereus 1961834 GAG|GTAAGTGAAA...AATGCATTAGTA/CAGCTTCTGATT...TCTAG|AAA 1 1 85.501

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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]);