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)

9 rows where transcript_id = 29320792

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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
163356468 GT-AG 0 0.0010732141108702 856 rna-XM_021968331.1 29320792 1 77519 78374 Prunus avium 42229 AAG|GTATGGTATA...TATTCTTTATCT/CTATTCTTTATC...GACAG|ATT 2 1 17.514
163356469 GT-AG 0 1.000000099473604e-05 95 rna-XM_021968331.1 29320792 2 77366 77460 Prunus avium 42229 GAG|GTAGTTAATA...AATACCTCATTT/GAATACCTCATT...AATAG|GGT 0 1 24.068
163356470 GT-AG 0 0.005752357208639 140 rna-XM_021968331.1 29320792 3 77088 77227 Prunus avium 42229 ACT|GTATAGAGCA...CTTTCATTAACT/CTTTCATTAACT...CTCAG|ATG 0 1 39.661
163356471 GT-AG 0 1.000000099473604e-05 503 rna-XM_021968331.1 29320792 4 76490 76992 Prunus avium 42229 AGC|GTGAGTATGC...CATTTATTGATT/CATTTATTGATT...TGCAG|TGA 2 1 50.395
163356472 GT-AG 0 6.105960059022959 107 rna-XM_021968331.1 29320792 5 76298 76404 Prunus avium 42229 CCG|GTATTCTTTC...GCTTTCTTAGTC/AGCTTTCTTAGT...TCCAG|GAA 0 1 60.0
163356473 GT-AG 0 1.000000099473604e-05 418 rna-XM_021968331.1 29320792 6 75820 76237 Prunus avium 42229 CAG|GTTCTTGAAC...TCGTTTTTAATT/TCGTTTTTAATT...CTCAG|GTT 0 1 66.78
163356474 GT-AG 0 1.000000099473604e-05 211 rna-XM_021968331.1 29320792 7 75553 75763 Prunus avium 42229 AAG|GTAATGTGCA...TCTGTCTTCATT/TTTATTCTAATA...TGCAG|TTT 2 1 73.107
163356475 GT-AG 0 0.000592199085914 139 rna-XM_021968331.1 29320792 8 75308 75446 Prunus avium 42229 GAG|GTATGGTCTT...CATTTCTTATTA/TCATTTCTTATT...TTTAG|GGG 0 1 85.085
163356476 GT-AG 0 0.0084231559176269 356 rna-XM_021968331.1 29320792 9 74883 75238 Prunus avium 42229 CAG|GTAACCTAGC...TATGCCTCAATA/TCAATACTGACT...TGCAG|GTT 0 1 92.881

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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]);