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 = 20937055

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Suggested facets: phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
112209943 GT-AG 0 1.000000099473604e-05 43467 rna-XM_027952803.1 20937055 1 9521329 9564795 Marmota flaviventris 93162 AAG|GTGCGTGCTG...AGTTTCTTGTTT/TCTTGTTTCATT...CACAG|GTG 0 1 28.082
112209944 GT-AG 0 1.000000099473604e-05 109280 rna-XM_027952803.1 20937055 2 9411810 9521089 Marmota flaviventris 93162 AAG|GTAAGAATTT...AGTTCCCCATCC/AGTGGATTCAGA...TACAG|GAA 2 1 41.724
112209945 GT-AG 0 1.000000099473604e-05 4523 rna-XM_027952803.1 20937055 3 9407183 9411705 Marmota flaviventris 93162 ATG|GTAAGCCTAA...GCCCCACTGACT/GCCCCACTGACT...TGCAG|AGG 1 1 47.66
112209946 GT-AG 0 1.000000099473604e-05 13445 rna-XM_027952803.1 20937055 4 9393505 9406949 Marmota flaviventris 93162 AAG|GTGGGTGTGC...TTCATTTTAATG/TGAGTTTTCATT...CCTAG|AAC 0 1 60.959
112209947 GT-AG 0 1.000000099473604e-05 4281 rna-XM_027952803.1 20937055 5 9389123 9393403 Marmota flaviventris 93162 CGG|GTAAGGCAGC...ATCTGTTTGCTC/TGAGATTTCAAG...TTTAG|GCG 2 1 66.724
112209948 GT-AG 0 1.000000099473604e-05 2232 rna-XM_027952803.1 20937055 6 9386623 9388854 Marmota flaviventris 93162 CAG|GTGACTGGCA...TGTTTCCTATTT/AAATCTTTCATA...AACAG|GCC 0 1 82.021
112209949 GT-AG 0 1.000000099473604e-05 9442 rna-XM_027952803.1 20937055 7 9377076 9386517 Marmota flaviventris 93162 CCA|GTAAGTAGAA...TTTTCCGTGTAT/TGCCCTGTCAAT...ATCAG|GTG 0 1 88.014
112209950 GT-AG 0 1.000000099473604e-05 620 rna-XM_027952803.1 20937055 8 9376358 9376977 Marmota flaviventris 93162 AAG|GTAAGAGAGC...CTCTCCTTAGAA/TCTTGTCTGACT...CACAG|GAA 2 1 93.607

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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]);