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 = 23844518

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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
129393697 GT-AG 0 1.000000099473604e-05 991 rna-XM_009464192.1 23844518 1 69140 70130 Nipponia nippon 128390 CCG|GTAAGTGCCC...CTGTCCTTTACG/CCATCTCTGATG...TGCAG|GGG 2 1 3.994
129393698 GT-AG 0 0.0059425763528913 2259 rna-XM_009464192.1 23844518 2 70198 72456 Nipponia nippon 128390 AAG|GTATCGTCAG...CGGTGGTTAACT/CGGTGGTTAACT...TTCAG|CTT 0 1 13.223
129393699 GT-AG 0 1.000000099473604e-05 1021 rna-XM_009464192.1 23844518 3 72584 73604 Nipponia nippon 128390 TAG|GTAAGGAAAA...TTTTTTTTTTCT/TCGCAAATCATC...TCCAG|GGT 1 1 30.716
129393700 GT-AG 0 1.000000099473604e-05 761 rna-XM_009464192.1 23844518 4 73673 74433 Nipponia nippon 128390 CAG|GTAAGACTTG...ATTGTCGTATTT/GATAATTTGAAT...CGCAG|AAT 0 1 40.083
129393701 GT-AG 0 1.000000099473604e-05 90 rna-XM_009464192.1 23844518 5 74542 74631 Nipponia nippon 128390 ATG|GTGCGGAGCT...CTGTCCTAACCT/CCTGTCCTAACC...TGCAG|TCT 0 1 54.959
129393702 GT-AG 0 9.922908312593706e-05 929 rna-XM_009464192.1 23844518 6 74691 75619 Nipponia nippon 128390 GCT|GTAAGTTCTG...TCACTCTCACCC/TTCACTCTCACC...TGCAG|GTT 2 1 63.085
129393703 GT-AG 0 1.000000099473604e-05 2076 rna-XM_009464192.1 23844518 7 75723 77798 Nipponia nippon 128390 AAG|GTAAGGCCAC...CTTGCTTGAGTG/TAATGAGTGATT...TACAG|TCA 0 1 77.273
129393704 GT-AG 0 0.0074764983793107 3041 rna-XM_009464192.1 23844518 8 77886 80926 Nipponia nippon 128390 GAG|GTAACCGTGA...TGCTCCTTCTCT/GCGCACTTAACC...TTCAG|CTT 0 1 89.256

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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]);