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)

7 rows where transcript_id = 10143823

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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
55681169 GT-AG 0 9.598448076690186e-05 652 rna-XM_023698231.1 10143823 2 18980988 18981639 Cucurbita pepo 3663 TAG|GTATGGATTC...CTTTCTTTCATG/CTTTCTTTCATG...GCCAG|CTG 1 1 26.023
55681170 GT-AG 0 1.0375557967950136e-05 135 rna-XM_023698231.1 10143823 3 18980774 18980908 Cucurbita pepo 3663 CAG|GTAAGTTTCT...ATGTCCTTGCTG/CTCATGTTTACT...GTTAG|GTT 2 1 27.752
55681171 GT-AG 0 8.150004666456791e-05 697 rna-XM_023698231.1 10143823 4 18980009 18980705 Cucurbita pepo 3663 ATG|GTAATCACTC...AATTCCTTCTCT/TTTCGTTTAAAT...AATAG|GCT 1 1 29.241
55681172 GT-AG 0 1.000000099473604e-05 727 rna-XM_023698231.1 10143823 5 18979131 18979857 Cucurbita pepo 3663 AAG|GTTTGTGTAT...GTATCTTTGGAT/TTGTTTCTCATG...GTTAG|AGT 2 1 32.545
55681173 GT-AG 0 1.8703449412445043e-05 594 rna-XM_023698231.1 10143823 6 18977965 18978558 Cucurbita pepo 3663 CTG|GTATTGAGCT...AACTTCTAATTT/CAACTTCTAATT...TGCAG|AAG 1 1 45.065
55681174 GT-AG 0 0.0009715860943184 108 rna-XM_023698231.1 10143823 7 18977659 18977766 Cucurbita pepo 3663 CAG|GTATGGTTGG...CTGGTTTTAATT/CTGGTTTTAATT...GTTAG|ATT 1 1 49.398
55692993 GT-AG 0 1.000000099473604e-05 100 rna-XM_023698231.1 10143823 1 18982946 18983045 Cucurbita pepo 3663 CAG|GTGCTGTTGC...CTGTGTTTAACG/CTGTGTTTAACG...CGCAG|ATA   0 0.919

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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]);