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)

9 rows where transcript_id = 8933557

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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
48131030 GT-AG 0 1.000000099473604e-05 1253 rna-XM_027294865.1 8933557 1 39926985 39928237 Coffea eugenioides 49369 AAG|GTCAGGCTAT...TACTTATTAATG/ATGATGTTTATT...GACAG|GTG 1 1 3.901
48131031 GT-AG 0 0.0007535335137769 858 rna-XM_027294865.1 8933557 2 39924441 39925298 Coffea eugenioides 49369 CAG|GTTTATTTCT...ATGTCTTTGAAT/TAGTTTCTCATG...TTCAG|GGG 1 1 45.013
48131032 GT-AG 0 1.000000099473604e-05 112 rna-XM_027294865.1 8933557 3 39924069 39924180 Coffea eugenioides 49369 GTG|GTAAATCCAT...ATCCTGTTAATG/TTATTCGTCACT...TTTAG|GTA 0 1 51.353
48131033 GT-AG 0 0.0015616718273764 150 rna-XM_027294865.1 8933557 4 39923709 39923858 Coffea eugenioides 49369 GAG|GTACTCTAAA...CCAATTTTATCT/CCCATGCTTATT...TCCAG|ATC 0 1 56.474
48131034 GT-AG 0 1.000000099473604e-05 1013 rna-XM_027294865.1 8933557 5 39922477 39923489 Coffea eugenioides 49369 CCT|GTGAGTATCA...GTTTCCGTAGCC/TTATTATTGATG...TTTAG|GTT 0 1 61.814
48131035 GT-AG 0 0.2046426863066369 521 rna-XM_027294865.1 8933557 6 39920990 39921510 Coffea eugenioides 49369 CAG|GTATCTTCAT...TAAGTGTTGATT/TAAGTGTTGATT...TGCAG|GCA 0 1 85.369
48131036 GT-AG 0 1.000000099473604e-05 155 rna-XM_027294865.1 8933557 7 39920739 39920893 Coffea eugenioides 49369 GAG|GTAAATGTGC...GGGGTCTTGAAA/CTTGAAATGATG...TGCAG|GTA 0 1 87.71
48131037 GT-AG 0 1.000000099473604e-05 653 rna-XM_027294865.1 8933557 8 39919987 39920639 Coffea eugenioides 49369 CAG|GTTAGATAGT...TAGCCCTCAATT/ATAGCCCTCAAT...TACAG|ATT 0 1 90.124
48131038 GT-AG 0 0.0107735659135053 1208 rna-XM_027294865.1 8933557 9 39918589 39919796 Coffea eugenioides 49369 AAG|GTATTTGTTT...TTGACCTTGACA/ATTATATTGACC...TATAG|CCT 1 1 94.757

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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]);