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 = 24462883

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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
133657913 GT-AG 0 1.000000099473604e-05 1293 rna-XM_004391592.2 24462883 3 2333662 2334954 Odobenus rosmarus 9707 CAG|GTACAGAATT...TGTGTTTTATAT/ATGTGTTTTATA...TCCAG|GTG 1 1 28.9
133657914 GT-AG 0 0.0001412181127314 1152 rna-XM_004391592.2 24462883 4 2335043 2336194 Odobenus rosmarus 9707 TGA|GTAAGTTTCT...TGTGTTGTATTG/TCCTGTTTCATG...GCCAG|TCT 2 1 36.125
133657915 GT-AG 0 1.000000099473604e-05 1959 rna-XM_004391592.2 24462883 6 2336414 2338372 Odobenus rosmarus 9707 AAG|GTAGGAATGA...GATTATTTAATC/GATTATTTAATC...CACAG|GTC 0 1 53.941
133657916 GT-AG 0 0.0007401896154903 1813 rna-XM_004391592.2 24462883 7 2338634 2340446 Odobenus rosmarus 9707 ATG|GTATGTAACA...TTCACTTTAATG/TAAATATTAATT...TCCAG|GTG 0 1 75.369
133657917 GT-AG 0 0.0002535885177938 829 rna-XM_004391592.2 24462883 8 2340583 2341411 Odobenus rosmarus 9707 GTG|GTACATAGTT...CTCCTCTTACCC/CTGAATCTTACA...TTCAG|GCT 1 1 86.535
133657918 GT-AG 0 4.194911762421268e-05 3218 rna-XM_004391592.2 24462883 9 2341551 2344768 Odobenus rosmarus 9707 GAG|GTAGATATTA...TGTCTTTTATTT/ATGTCTTTTATT...TGTAG|CAT 2 1 97.947
133658038 GT-AG 0 1.6298571073548448e-05 3126 rna-XM_004391592.2 24462883 1 2329804 2332929 Odobenus rosmarus 9707 AAA|GTAAGCAAAA...CTGACTTTAAAA/ACTGGTTTCATC...TCCAG|GTA   0 9.113
133658039 GT-AG 0 1.000000099473604e-05 491 rna-XM_004391592.2 24462883 2 2333032 2333522 Odobenus rosmarus 9707 AAG|GTGAAACATT...CTCCCTTTACCC/TCTTTTCTAAAT...TATAG|ATG   0 17.488

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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]);