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)

7 rows where transcript_id = 9992734

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Suggested facets: dinucleotide_pair, score, 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
54888336 GT-AG 0 1.850900676693457e-05 2120 rna-XM_009558448.1 9992734 1 773144 775263 Cuculus canorus 55661 AAT|GTAAGTTGTC...CTGTTCTCATCT/TCTGTTCTCATC...TGTAG|GTG 0 1 18.58
54888337 GT-AG 0 8.349587170988303e-05 1968 rna-XM_009558448.1 9992734 2 775342 777309 Cuculus canorus 55661 TTT|GTAAGTGTTG...GTGTTCTGAATT/TGTGTTCTGAAT...TATAG|CTA 0 1 25.021
54888338 GT-AG 0 1.000000099473604e-05 1690 rna-XM_009558448.1 9992734 3 777388 779077 Cuculus canorus 55661 GCT|GTGAGTAGTA...TTAGTCTTAACT/ACTGTTCTTACC...TTCAG|TTT 0 1 31.462
54888339 GT-AG 0 0.0035607657200193 98 rna-XM_009558448.1 9992734 4 779132 779229 Cuculus canorus 55661 CAG|GTATATATTC...ATTTCTGTGATG/AAGTTCTTCAGG...TCAAG|CTG 0 1 35.921
54888340 GT-AG 0 0.005917002787602 998 rna-XM_009558448.1 9992734 5 779348 780345 Cuculus canorus 55661 ACA|GTAAGCTTTT...GTTTCTTTGCCT/TGAGTTCTTATG...TTTAG|GAT 1 1 45.665
54888341 GT-AG 0 1.000000099473604e-05 5352 rna-XM_009558448.1 9992734 6 780445 785796 Cuculus canorus 55661 CAG|GTAGTTATGT...CTTCTCTCAACT/ACTGATCTAATA...TTCAG|GAT 1 1 53.84
54888346 GC-AG 0 1.000000099473604e-05 780 rna-XM_009558448.1 9992734 7 785867 786646 Cuculus canorus 55661 CAG|GCAAGTTCCT...GTTTTGTTGACA/TCTTCTTTCATT...TACAG|AAA   0 59.62

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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]);