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 = 20937014

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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
112209498 GT-AG 0 1.000000099473604e-05 59893 rna-XM_027947116.1 20937014 1 141794 201686 Marmota flaviventris 93162 TAG|GTAAGACTTC...TATTTCTTATTT/ATATTTCTTATT...CTCAG|CCA 1 1 35.879
112209499 GT-AG 0 1.000000099473604e-05 5445 rna-XM_027947116.1 20937014 2 136216 141660 Marmota flaviventris 93162 CTG|GTAAGATTGT...AAACCCATAAAT/CTTATTCTCATA...TTTAG|GTG 2 1 41.089
112209500 GT-AG 0 1.000000099473604e-05 16362 rna-XM_027947116.1 20937014 3 119636 135997 Marmota flaviventris 93162 GAG|GTAAAGTATA...TTGTTTATAATA/ATAATATTCATT...TATAG|ACC 1 1 49.628
112209501 GT-AG 0 1.000000099473604e-05 30599 rna-XM_027947116.1 20937014 4 88872 119470 Marmota flaviventris 93162 CTG|GTAAGGCACT...CTCCCCTTCTCT/TTCAAATTAATC...TCCAG|GTG 1 1 56.091
112209502 GT-AG 0 1.000000099473604e-05 17206 rna-XM_027947116.1 20937014 5 71467 88672 Marmota flaviventris 93162 AGG|GTAAGTACCT...TTCATTTTAATT/CTTGCTTTCATT...CTCAG|ACC 2 1 63.886
112209503 GT-AG 0 1.000000099473604e-05 2062 rna-XM_027947116.1 20937014 6 69245 71306 Marmota flaviventris 93162 GGG|GTGAGTATAT...TTCCTTTTGATT/TTCCTTTTGATT...CTTAG|ATT 0 1 70.153
112209504 GT-AG 0 1.000000099473604e-05 2151 rna-XM_027947116.1 20937014 7 66852 69002 Marmota flaviventris 93162 CAG|GTGAGAACAG...ACAATTTTAAAA/ACAATTTTAAAA...TGTAG|GTC 2 1 79.632
112209505 GT-AG 0 5.1401708420960224e-05 2236 rna-XM_027947116.1 20937014 8 64551 66786 Marmota flaviventris 93162 TTG|GTACGTCCCT...TTTTCTTTCTCT/GATGTACTGAAT...CCTAG|CAT 1 1 82.178

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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]);