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 = 20937052

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
112209917 GT-AG 0 0.0001916060612799 38 rna-XM_027949476.2 20937052 1 61091201 61091238 Marmota flaviventris 93162 AGG|GTAACTATAA...GAGGCCTGGGTC/CTGGGTCCAAGG...GGAAG|GAA 1 1 11.661
112209918 GT-AG 0 1.000000099473604e-05 10553 rna-XM_027949476.2 20937052 2 61091245 61101797 Marmota flaviventris 93162 ATG|GTGAGGCTGC...GGGGTCTCAGTG/TGGGGTCTCAGT...CCCAG|GTG 1 1 12.002
112209919 GC-AG 0 0.0034330940936768 99 rna-XM_027949476.2 20937052 3 61102029 61102127 Marmota flaviventris 93162 GCA|GCCACCTGGC...GACCCCTGAGCA/GGACCCCTGAGC...CACAG|TGA 1 1 25.142
112209920 GT-AG 0 1.000000099473604e-05 105 rna-XM_027949476.2 20937052 4 61102467 61102571 Marmota flaviventris 93162 AAG|GTAATGGGGT...CTCACTCTAACC/CCTCCTCTCATT...ACCAG|TCA 1 1 44.425
112209921 GT-AG 0 1.000000099473604e-05 133 rna-XM_027949476.2 20937052 5 61103079 61103211 Marmota flaviventris 93162 GAG|GTCAGTGAGG...CGTCCCCTGTCA/CCACCGCTCACC...CCCAG|AGT 1 1 73.265
112209922 GT-AG 0 1.000000099473604e-05 7132 rna-XM_027949476.2 20937052 6 61103352 61110483 Marmota flaviventris 93162 CAG|GTGTGTGGCT...GGCTCCTGAAGA/GGGCTCCTGAAG...CACAG|GCA 0 1 81.229

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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]);