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 = 623823

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Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
3437747 GT-AG 0 1.803410658518439e-05 59 rna-EDS130_LOCUS318 623823 1 904405 904463 Adineta ricciae 249248 AAG|GTTTGGTTGT...GTTTTCTTCATA/GTTTTCTTCATA...TCTAG|ATA 1 1 18.841
3437748 GT-AG 0 1.000000099473604e-05 51 rna-EDS130_LOCUS318 623823 2 904260 904310 Adineta ricciae 249248 TTT|GTAAGATAAG...AATGACTTGAAT/AATGACTTGAAT...TTCAG|AAA 2 1 22.847
3437749 GT-AG 0 1.000000099473604e-05 55 rna-EDS130_LOCUS318 623823 3 904072 904126 Adineta ricciae 249248 CAG|GTAGAAGAAT...GTCGTTTTATCT/GGTCGTTTTATC...TACAG|TGG 0 1 28.517
3437750 GT-AG 0 1.000000099473604e-05 56 rna-EDS130_LOCUS318 623823 4 903496 903551 Adineta ricciae 249248 AAG|GTTTGATCAT...TTTTCTTTTCTT/TTTCTTCTGATT...CGCAG|GTG 1 1 50.682
3437751 GT-AG 0 1.000000099473604e-05 56 rna-EDS130_LOCUS318 623823 5 903359 903414 Adineta ricciae 249248 CGG|GTTAGTTTCG...TTAATCTCGAAT/ATGTAGTTAATC...TGTAG|CTC 1 1 54.135
3437752 GT-AG 0 1.000000099473604e-05 53 rna-EDS130_LOCUS318 623823 6 902832 902884 Adineta ricciae 249248 ATG|GTAAAACTCC...TTTTCTTTCAAT/TTTTCTTTCAAT...TATAG|GGC 1 1 74.339
3437753 GT-AG 0 1.000000099473604e-05 46 rna-EDS130_LOCUS318 623823 7 902690 902735 Adineta ricciae 249248 AAG|GTAAGTTAGC...AAAGCTTTTGCT/ATGATTTTCACA...TTCAG|ATA 1 1 78.431
3437754 GT-AG 0 0.0002573816286493 48 rna-EDS130_LOCUS318 623823 8 902391 902438 Adineta ricciae 249248 ACA|GTCAGTTTCT...TGCTCCTTATTT/CCTTATTTCAGT...TTTAG|ATT 0 1 89.13

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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]);