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 = 34107358

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Suggested facets: dinucleotide_pair, 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
190903012 GT-AG 0 3.558523228960435e-05 322 Sbene_T00703-R1 34107358 1 21202110 21202431 Streblospio benedicti 95538 TTG|GTAAGTCTTT...GTTTCTTTGAAC/ACCCTACTTACT...TCCAG|GCG 1 1 1.269
190903013 GT-AG 0 1.000000099473604e-05 525 Sbene_T00703-R1 34107358 2 21202650 21203174 Streblospio benedicti 95538 CAG|GTACGGCTAC...AATGTTTTATTT/AAATGTTTTATT...TGAAG|GTA 0 1 11.146
190903014 GT-AG 0 7.633782179592466e-05 142 Sbene_T00703-R1 34107358 3 21204202 21204343 Streblospio benedicti 95538 GAG|GTAGGTTTAC...TTATCATTGACA/CGATAATTCATT...TCCAG|ATA 1 1 57.68
190903015 GC-AG 0 1.000000099473604e-05 811 Sbene_T00703-R1 34107358 4 21204482 21205292 Streblospio benedicti 95538 CAG|GCAAGAAGTC...AATACTTTACAA/CATTTACTAACA...TTCAG|AAA 1 1 63.933
190903016 GT-AG 0 1.000000099473604e-05 190 Sbene_T00703-R1 34107358 5 21205410 21205599 Streblospio benedicti 95538 CTG|GTAAGTACAT...TATTTTTTTCCT/CATAATGTTATT...CTAAG|TAC 1 1 69.234
190903017 GT-AG 0 1.000000099473604e-05 456 Sbene_T00703-R1 34107358 6 21205720 21206175 Streblospio benedicti 95538 CTG|GTACGTAAAT...TGATACTTATTA/TTGATACTTATT...TACAG|GGA 1 1 74.671
190904910 GT-AG 0 1.000000099473604e-05 199 Sbene_T00703-R1 34107358 7 21206427 21206625 Streblospio benedicti 95538 TAG|GTAAAAAGTG...TTGTCTTTAATG/AAATTTCTTACT...TTCAG|GTG   0 86.044

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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]);