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)

6 rows where transcript_id = 34796157

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Suggested facets: dinucleotide_pair, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
195999942 GT-AG 0 0.0003833182002177 2938 rna-XM_043844132.1 34796157 2 6787699 6790636 Telopea speciosissima 54955 GAG|GTATTTAAAG...AAGGTCTTACTT/CAAGGTCTTACT...TGCAG|GGA 2 1 2.726
195999943 GT-AG 0 0.0001036369598387 221 rna-XM_043844132.1 34796157 3 6784414 6784634 Telopea speciosissima 54955 CAG|GTATTTCAAA...CATCTATTAACC/CATCTATTAACC...TGCAG|GGT 0 1 49.915
195999944 GT-AG 0 6.638187837254541e-05 1898 rna-XM_043844132.1 34796157 4 6779977 6781874 Telopea speciosissima 54955 CTG|GTTTGTCTCC...TTCTGTTTAACT/TTCTGTTTAACT...TGCAG|CTG 1 1 89.019
195999945 GT-AG 0 0.0594802366578023 1446 rna-XM_043844132.1 34796157 5 6778076 6779521 Telopea speciosissima 54955 AAG|GTATCATACA...AAATTCGTGATT/ATTGCATTTACA...GTCAG|ATT 0 1 96.026
195999946 GT-AG 0 1.000000099473604e-05 116 rna-XM_043844132.1 34796157 6 6777843 6777958 Telopea speciosissima 54955 AAG|GTCAGTGACC...ATTTCTTTATAC/TGGTTACTGACT...TGCAG|AGC 0 1 97.828
196014286 TT-AG 0 0.0016460411142649 877 rna-XM_043844132.1 34796157 1 6790711 6791587 Telopea speciosissima 54955 CTG|TTATGTTCCC...TATTCTTTTGTC/TGCTGTTTGATA...CCCAG|GAA   0 1.725

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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]);