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 = 30628736

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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
171036048 GT-AG 0 0.0003973748616758 14992 rna-XM_020516063.1 30628736 1 6315 21306 Rhincodon typus 259920 GAG|GTATGATGTC...TCTGTTTTAACA/TCTGTTTTAACA...TACAG|GCA 0 1 12.958
171036049 GT-AG 0 8.883106989439172e-05 11644 rna-XM_020516063.1 30628736 2 21400 33043 Rhincodon typus 259920 GAG|GTACGTATTT...TGTATTTTATAA/CTGTATTTTATA...CACAG|ATA 0 1 21.69
171036050 GT-AG 0 1.000000099473604e-05 1653 rna-XM_020516063.1 30628736 3 33167 34819 Rhincodon typus 259920 GAA|GTAAGTTGCC...GTTGACTGAAAT/GAGAAGTTGACT...CCTAG|GTC 0 1 33.239
171036051 GT-AG 0 1.000000099473604e-05 2015 rna-XM_020516063.1 30628736 4 34898 36912 Rhincodon typus 259920 CAG|GTAAGCGCCT...CTTTGTTTAATT/CTTTGTTTAATT...TGCAG|GTT 0 1 40.563
171036052 GT-AG 0 5.608506328509297e-05 55982 rna-XM_020516063.1 30628736 5 36995 92976 Rhincodon typus 259920 CAG|GTATAGTAAT...AATTTCTTTTTT/AATATACTAAAT...TCTAG|TTT 1 1 48.263
171036053 GT-AG 0 1.000000099473604e-05 9040 rna-XM_020516063.1 30628736 6 93127 102166 Rhincodon typus 259920 ATG|GTAAGTCTCA...AGGACCTTCCCC/ACCTTCCCCACA...ATGAG|GCC 1 1 62.347
171036054 GT-AG 0 1.000000099473604e-05 5978 rna-XM_020516063.1 30628736 7 102541 108518 Rhincodon typus 259920 TCA|GTAAAGGGCT...TCCCCTTTAATC/GTTTTTCTCATG...ATCAG|CTT 0 1 97.465

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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]);