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 = 35515715

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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
199620339 GG-AG 0 1.000000099473604e-05 32752 rna-XM_010214012.1 35515715 1 199264 232015 Tinamus guttatus 94827 AAG|GGAAAGGCGC...TAAACTGTTACC/GTATATCTAATA...CACAG|AAA 1 1 13.222
199620340 GT-AG 0 2.6283471757206432e-05 23516 rna-XM_010214012.1 35515715 2 175605 199120 Tinamus guttatus 94827 GAT|GTAAGTATCT...TTTGTTTTATAG/ATTTTGTTTACT...TCTAG|TTT 0 1 26.536
199620341 GT-AG 0 1.000000099473604e-05 23550 rna-XM_010214012.1 35515715 3 151938 175487 Tinamus guttatus 94827 AAG|GTAAGTGCTT...AGCATCTTAAAG/AGCATCTTAAAG...TTCAG|GTC 0 1 37.43
199620342 GC-AG 0 1.000000099473604e-05 15522 rna-XM_010214012.1 35515715 4 136365 151886 Tinamus guttatus 94827 GAG|GCAAGTAAAT...ATTTCTTTATTT/TATTTATTCATT...ATTAG|GAA 0 1 42.179
199620343 GT-AG 0 0.0001407256157319 30186 rna-XM_010214012.1 35515715 5 106035 136220 Tinamus guttatus 94827 GCA|GTAAGTATTT...TGTTTCTTCATA/TGTTTCTTCATA...TGCAG|GCA 0 1 55.587
199620344 GT-AG 0 0.0001697500343405 2327 rna-XM_010214012.1 35515715 6 103620 105946 Tinamus guttatus 94827 CAC|GTAAGCATGT...TTCTTCTGAATT/TTTCTTCTGAAT...TGTAG|CAG 1 1 63.78
199620345 GT-AG 0 1.000000099473604e-05 2605 rna-XM_010214012.1 35515715 7 100718 103322 Tinamus guttatus 94827 TAG|GTAAGACCTT...TTTTCTTTGAAT/TGTTTTCTAACT...ACTAG|GTG 1 1 91.434
199620346 GT-AG 0 1.000000099473604e-05 4607 rna-XM_010214012.1 35515715 8 96036 100642 Tinamus guttatus 94827 GAG|GTTAGTTTAG...TTTTCTTTCTTT/TTGTTTCTAACC...CCCAG|CCG 1 1 98.417

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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]);