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 = 32077019

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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
179146645 GT-AG 0 0.0005513131877063 45 rna-XM_008605844.1 32077019 1 1166492 1166536 Saprolegnia diclina 112098 AAT|GTACACCCAC...TCAATCTAATCG/CTCAATCTAATC...TTTAG|ATC 2 1 50.317
179146646 GT-AG 0 1.000000099473604e-05 49 rna-XM_008605844.1 32077019 2 1167381 1167429 Saprolegnia diclina 112098 GAG|GTTTTTGAAA...GTTGTCTGATGT/TGATGTCTCATG...TGTAG|AAA 0 1 67.587
179146647 GT-AG 0 1.000000099473604e-05 47 rna-XM_008605844.1 32077019 3 1167550 1167596 Saprolegnia diclina 112098 AAG|GTAGAGCGAC...CGTTCTCTATAC/GTTCTCTATACA...CGTAG|CAA 0 1 70.043
179146648 GT-AG 0 1.746055668497984e-05 50 rna-XM_008605844.1 32077019 4 1167643 1167692 Saprolegnia diclina 112098 TTG|GTAACGCGAG...TGGCACTTGAAG/CGGTGACGCACC...TGTAG|ATC 1 1 70.984
179146649 GT-AG 0 0.0008317649388089 49 rna-XM_008605844.1 32077019 5 1167818 1167866 Saprolegnia diclina 112098 CCG|GTAGGCCTTG...CCCATCTTAATG/CCCATCTTAATG...CGTAG|GCT 0 1 73.542
179146650 GT-AG 0 1.000000099473604e-05 42 rna-XM_008605844.1 32077019 6 1168414 1168455 Saprolegnia diclina 112098 CAG|GTACAGCGGA...TGGCTCATATAC/CGTTGGCTCATA...ACTAG|AGC 1 1 84.735
179146651 GT-AG 0 4.231010289251774e-05 41 rna-XM_008605844.1 32077019 7 1168512 1168552 Saprolegnia diclina 112098 ATG|GTACGCCCTT...CAGTGCTTATGG/GCAGTGCTTATG...GGTAG|ACG 0 1 85.881
179146652 GT-AG 0 1.000000099473604e-05 48 rna-XM_008605844.1 32077019 8 1168746 1168793 Saprolegnia diclina 112098 CAG|GTCGAGCGTT...TTGCTCTCGACT/ACGATACTGAAC...CGTAG|GGC 1 1 89.83

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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]);