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 = 30001197

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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
168077885 GT-AG 0 1.000000099473604e-05 111 rna-XM_009353703.1 30001197 1 3948423 3948533 Pyrus x bretschneideri 225117 AAG|GTCATTCCTT...TTGTACTTATAT/TTTGTACTTATA...TATAG|GTC 0 1 3.069
168077886 GT-AG 0 1.000000099473604e-05 646 rna-XM_009353703.1 30001197 2 3948727 3949372 Pyrus x bretschneideri 225117 CTG|GTAATTAACC...CTCTGTGTAATG/CAGAAATTAAAT...TGCAG|AGT 1 1 11.296
168077887 GT-AG 0 1.000000099473604e-05 471 rna-XM_009353703.1 30001197 3 3949562 3950032 Pyrus x bretschneideri 225117 GTG|GTAAGAAATT...TGTTTGTTGATT/TGTTTGTTGATT...ATCAG|GTG 1 1 19.352
168077888 GT-AG 0 4.862788180903769e-05 2240 rna-XM_009353703.1 30001197 4 3950145 3952384 Pyrus x bretschneideri 225117 CAG|GTAAGTTTGT...TCACCTTTGATA/CCCAAGTTCACC...CGCAG|GAA 2 1 24.126
168077889 GT-AG 0 1.000000099473604e-05 195 rna-XM_009353703.1 30001197 5 3952950 3953144 Pyrus x bretschneideri 225117 GAG|GTAATTTAAA...AAATGTTTGATT/AAATGTTTGATT...TTCAG|GGA 0 1 48.21
168077890 GT-AG 0 3.768703032203842e-05 287 rna-XM_009353703.1 30001197 6 3953246 3953532 Pyrus x bretschneideri 225117 AGG|GTAAAGTTTA...GTGATTTTAATT/GTGATTTTAATT...TGCAG|ACA 2 1 52.515
168077891 GT-AG 0 1.000000099473604e-05 157 rna-XM_009353703.1 30001197 7 3953891 3954047 Pyrus x bretschneideri 225117 AAG|GTAAAGTTCG...TCTTCCTTCACC/TCTTCCTTCACC...GGCAG|CCG 0 1 67.775
168077892 GT-AG 0 4.2657247534078096e-05 96 rna-XM_009353703.1 30001197 8 3954265 3954360 Pyrus x bretschneideri 225117 CAG|GTAAACTAAA...TAGTCTCTAACT/TAGTCTCTAACT...TGCAG|CTG 1 1 77.025

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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]);