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 = 8855940

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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
47813548 GT-AG 0 1.000000099473604e-05 1292 rna-XM_027253628.1 8855940 1 45221833 45223124 Coffea arabica 13443 CAG|GTGAATATAT...TAAACTTGGATT/AGTTTGCTCATT...TGCAG|GAT 0 1 20.66
47813549 GT-AG 0 7.678791853445418e-05 76 rna-XM_027253628.1 8855940 2 45224597 45224672 Coffea arabica 13443 CAG|GTACATGCTG...TTCCTTTTGATA/ATAATACTGACT...ATCAG|TGC 2 1 68.251
47813550 GT-AG 0 0.0003156867787443 122 rna-XM_027253628.1 8855940 3 45224815 45224936 Coffea arabica 13443 AAG|GTATTTGGCA...TGACTTTTAGCA/TAGTATTTGACT...TTTAG|TTC 0 1 72.842
47813551 GT-AG 0 1.000000099473604e-05 166 rna-XM_027253628.1 8855940 4 45225045 45225210 Coffea arabica 13443 AAG|GTAATACTTT...ATTTCGTTGACT/TTAAACCTCATC...TTTAG|GCT 0 1 76.334
47813552 GT-AG 0 0.0043323451205217 99 rna-XM_027253628.1 8855940 5 45225424 45225522 Coffea arabica 13443 CAG|GTCCCCATAC...GCTATCTGAACC/TGCTATCTGAAC...GGCAG|AGA 0 1 83.22
47813553 GT-AG 0 1.000000099473604e-05 696 rna-XM_027253628.1 8855940 6 45225634 45226329 Coffea arabica 13443 CAG|GTTCATGCTT...AATTCCTTGAAC/CTTCTTCTGATC...AATAG|CAT 0 1 86.809
47813554 GT-AG 0 2.6430093515958543e-05 194 rna-XM_027253628.1 8855940 7 45226525 45226718 Coffea arabica 13443 CAG|GTTTGTCATT...GTTGTTTTAACA/GTTGTTTTAACA...TGCAG|GCA 0 1 93.113
47813555 GT-AG 0 0.0497472145355402 412 rna-XM_027253628.1 8855940 8 45226894 45227305 Coffea arabica 13443 GTG|GTATGTATTT...ATTACCTTGATT/AATTGACTAATT...TGCAG|AAA 1 1 98.771

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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]);