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)

10 rows where transcript_id = 29501590

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Suggested facets: 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
164360855 GT-AG 0 1.000000099473604e-05 1159 rna-XM_005516149.2 29501590 2 41193 42351 Pseudopodoces humilis 181119 CAG|GTAATTTAAA...TCTTCATTACTG/AACATCTTCATT...TGCAG|AGG 1 1 23.34
164360856 GT-AG 0 1.000000099473604e-05 3821 rna-XM_005516149.2 29501590 3 42488 46308 Pseudopodoces humilis 181119 CAG|GTAGGAGAGG...TGACTTTTATAA/ATTAAATTTATT...TTCAG|GAT 2 1 27.855
164360857 GT-AG 0 1.000000099473604e-05 1377 rna-XM_005516149.2 29501590 4 46439 47815 Pseudopodoces humilis 181119 AAG|GTCAGTTGGC...TTTTTTTTCTCC/TGCCTTCTCACT...ACCAG|GTC 0 1 32.171
164360858 GT-AG 0 1.000000099473604e-05 1832 rna-XM_005516149.2 29501590 5 47918 49749 Pseudopodoces humilis 181119 TTG|GTAAGGCTGT...AATTCTGTGAAT/TTTGTAGTGAAT...TCCAG|CTA 0 1 35.558
164360859 GT-AG 0 1.000000099473604e-05 756 rna-XM_005516149.2 29501590 6 49909 50664 Pseudopodoces humilis 181119 AAA|GTAAGTCATG...TGATTTGTAACA/TAGATAATGATT...CCAAG|GCT 0 1 40.837
164360860 GT-AG 0 1.000000099473604e-05 121 rna-XM_005516149.2 29501590 7 50859 50979 Pseudopodoces humilis 181119 AGA|GTGAGTTTTT...TCTGCTTTTCTT/TTCCATCTCACA...CACAG|CTT 2 1 47.278
164360861 GT-AG 0 1.000000099473604e-05 1482 rna-XM_005516149.2 29501590 8 51074 52555 Pseudopodoces humilis 181119 CAG|GTAATTATTT...TTCTTCTGTGTT/CTAGGATTAAAT...GCCAG|CGA 0 1 50.398
164360862 GT-AG 0 0.0001243773178647 796 rna-XM_005516149.2 29501590 9 52663 53458 Pseudopodoces humilis 181119 CCG|GTATGTGACG...GTTATATTGATG/GTTATATTGATG...CAAAG|ATT 2 1 53.951
164360863 GT-AG 0 0.0008120624307402 598 rna-XM_005516149.2 29501590 10 54675 55272 Pseudopodoces humilis 181119 CAG|GTAACTCCTG...GGTCTTTTATCT/TATCTGCTGATA...CCCAG|GAG 0 1 94.323
164364567 GT-AG 0 1.000000099473604e-05 5079 rna-XM_005516149.2 29501590 1 35417 40495 Pseudopodoces humilis 181119 GAG|GTGACAGCAG...CCCTCCTTGAAC/CTTGAACTAACC...TTTAG|GAG   0 0.697

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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]);