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 = 10113159

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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
55534721 GT-AG 0 1.000000099473604e-05 107 rna-XM_023094388.1 10113159 1 9372715 9372821 Cucurbita moschata 3662 AAG|GTAAAGTAGA...AAAATCTAAGCA/AAAAATCTAAGC...TTCAG|TAT 0 1 11.997
55534722 GT-AG 0 1.000000099473604e-05 84 rna-XM_023094388.1 10113159 2 9372877 9372960 Cucurbita moschata 3662 CAG|GTACTGAGAG...TTTTCTTTACAT/TTTTTCTTTACA...TGCAG|AGA 1 1 13.338
55534723 GT-AG 0 1.000000099473604e-05 105 rna-XM_023094388.1 10113159 3 9373137 9373241 Cucurbita moschata 3662 AAG|GTGAGAAGCA...CCCCTTTTATCT/ATTGAATTAAAT...CGCAG|CTG 0 1 17.63
55534724 GT-AG 0 1.000000099473604e-05 90 rna-XM_023094388.1 10113159 4 9373443 9373532 Cucurbita moschata 3662 CAG|GTTAGGGGAG...TAATTCTTGATG/TCTTATATCATC...TGCAG|ACA 0 1 22.531
55534725 GT-AG 0 3.237141856649527e-05 76 rna-XM_023094388.1 10113159 5 9373793 9373868 Cucurbita moschata 3662 ACT|GTAAGTAGTC...AATTTTTTACTG/AAATTTTTTACT...CACAG|GGC 2 1 28.871
55534726 GT-AG 0 1.000000099473604e-05 135 rna-XM_023094388.1 10113159 6 9374186 9374320 Cucurbita moschata 3662 CAG|GTAAATGCCC...TCCTTCTTGACT/TCCTTCTTGACT...TGCAG|GTG 1 1 36.601
55534727 GT-AG 0 1.000000099473604e-05 879 rna-XM_023094388.1 10113159 7 9374545 9375423 Cucurbita moschata 3662 CAG|GTTAGCTATC...GAGGTTTTAAGT/ATGATGCTGAAT...GGTAG|GTA 0 1 42.063
55534728 GT-AG 0 0.0002221352381547 80 rna-XM_023094388.1 10113159 8 9375798 9375877 Cucurbita moschata 3662 AAG|GTAGCTAAAA...ATTTTCTTGGTC/CTTGGTCTAACT...TCTAG|GCC 2 1 51.183

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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]);