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 = 4118567

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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
21287079 GT-AG 0 1.000000099473604e-05 98 rna-XM_006675191.1 4118567 1 550655 550752 Batrachochytrium dendrobatidis 109871 TTT|GTGAGTAAAT...TAAACTTTACTA/CTTTTATTCAAA...TGTAG|AGA 2 1 55.64
21287080 GT-AG 0 0.0001297817716626 103 rna-XM_006675191.1 4118567 2 550480 550582 Batrachochytrium dendrobatidis 109871 TCT|GTAAGCAGCT...TAATCTATAGAT/AGTTTACTAACT...ACTAG|CTT 2 1 57.908
21287081 GT-AG 0 1.8331658698648585e-05 117 rna-XM_006675191.1 4118567 3 550298 550414 Batrachochytrium dendrobatidis 109871 CAG|GTATTACCAC...CTTTCTGTAATG/ATGTTAGTAACC...TTTAG|CTG 1 1 59.956
21287082 GT-AG 0 1.000000099473604e-05 94 rna-XM_006675191.1 4118567 4 550051 550144 Batrachochytrium dendrobatidis 109871 ACG|GTGATGCATG...TTATTTTTAGTG/TATAATTTTATT...TCTAG|ATG 1 1 64.776
21287083 GT-AG 0 0.0027329325966559 88 rna-XM_006675191.1 4118567 5 549891 549978 Batrachochytrium dendrobatidis 109871 TAG|GTAAACTTTA...AACGTTTTAATC/TTTAATCTAACC...AAAAG|AAT 1 1 67.045
21287084 GT-AG 0 1.000000099473604e-05 89 rna-XM_006675191.1 4118567 6 549585 549673 Batrachochytrium dendrobatidis 109871 TTT|GTGAGTAGCA...ATATTTTTACAT/CATATTTTTACA...ATCAG|GAT 2 1 73.882
21287085 GT-AG 0 1.000000099473604e-05 97 rna-XM_006675191.1 4118567 7 549438 549534 Batrachochytrium dendrobatidis 109871 CAG|GTAAACGCAT...AAAATTTTGATT/ATGTATCTAATT...ATTAG|GAA 1 1 75.457
21287086 GT-AG 0 1.000000099473604e-05 123 rna-XM_006675191.1 4118567 8 549041 549163 Batrachochytrium dendrobatidis 109871 AAG|GTGGGTGATT...GTTTTTTTGAAT/GTTTTTTTGAAT...ATTAG|AGG 2 1 84.089

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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]);